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CGSNL
Gene
Symbol 		Gene symbol synonym(s) CGSNL Gene Name Gene name synonym(s) Chr. No. Trait Class Gene Ontology Trait Ontology Plant Ontology RAP ID MSU ID Mutant
Image
NH1 OsNH1
OsNPR1
OsNPR1/NH1
NPR1
OsPR2
PR2
DLN5
OsDLN5
OsBTBA1
BTBA1
 NPR1 HOMOLOG 1 NPR1-like 1
NPR1 homologue 1
nonexpresser of PR genes 1
Arabidopsis NPR1 homolog 1
non-expressor of pathogenesis-related gene 1
Arabidopsis NPR1 homologue 1
pathogenesis-related gene 2
nonexpressor of PR genes 1
Nonexpressor of Pathogenesis-Related Genes1
NONEXPRESSOR OF PATHOGENESIS-RELATED1 HOMOLOG1
NONEXPRESSOR OF PATHOGENESIS-RELATED GENES1
non-expressor pathogenesis-related 1
NONEXPRESSOR OF PR1
DLN repressor 5
DLN motif protein 5
BTB-type E3 ubiquitin ligase A1
 1 Character as QTL - Yield and productivity
Tolerance and resistance - Disease resistance
Tolerance and resistance - Lesion mimic
Tolerance and resistance - Insect resistance
Vegetative organ - Culm
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
 GO:0010200 - response to chitin
GO:0009734 - auxin mediated signaling pathway
GO:0002215 - defense response to nematode
GO:0010112 - regulation of systemic acquired resistance
GO:0008219 - cell death
GO:0006952 - defense response
GO:0048364 - root development
GO:0010942 - positive regulation of cell death
GO:0006950 - response to stress
GO:0031348 - negative regulation of defense response
GO:0045893 - positive regulation of transcription, DNA-dependent
GO:0009625 - response to insect
GO:0016563 - transcription activator activity
GO:0009863 - salicylic acid mediated signaling pathway
GO:0002237 - response to molecule of bacterial origin
GO:0005829 - cytosol
GO:0042742 - defense response to bacterium
GO:0009737 - response to abscisic acid stimulus
GO:0009867 - jasmonic acid mediated signaling pathway
GO:0009609 - response to symbiotic bacterium
GO:0002213 - defense response to insect
GO:0009814 - defense response, incompatible interaction
GO:0050832 - defense response to fungus
GO:0009682 - induced systemic resistance
GO:0009408 - response to heat
GO:0009611 - response to wounding
GO:0009627 - systemic acquired resistance
GO:0005634 - nucleus
GO:0051607 - defense response to virus
 TO:0000656 - root development trait
TO:0000175 - bacterial blight disease resistance
TO:0000445 - seed number
TO:0000255 - sheath blight disease resistance
TO:0000346 - tiller number
TO:0000615 - abscisic acid sensitivity
TO:0000384 - nematode damage resistance
TO:0000424 - brown planthopper resistance
TO:0000401 - plant growth hormone sensitivity
TO:0000207 - plant height
TO:0000163 - auxin sensitivity
TO:0000074 - blast disease
TO:0000063 - mimic response
TO:0000172 - jasmonic acid sensitivity
TO:0000148 - viral disease resistance
TO:0000112 - disease resistance
TO:0000181 - seed weight
 PO:0007089 - stem elongation stage
PO:0007520 - root development stage
Os01g0194300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g09800.1
CIPK02 OsCIPK02
CIPK2
OsCIPK2
OsSnRK3.26
SnRK3.26
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 2 CBL-interacting protein kinase 2
Sucrose nonfermenting-1-related protein kinase 3.26
 7 Character as QTL - Yield and productivity
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
Biochemical character
 GO:0034219 - carbohydrate transmembrane transport
GO:0009737 - response to abscisic acid stimulus
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0031667 - response to nutrient levels
GO:0042128 - nitrate assimilation
GO:0015770 - sucrose transport
GO:0042594 - response to starvation
GO:0019740 - nitrogen utilization
GO:0044136 - development of symbiont on or near host rhizosphere
GO:0009651 - response to salt stress
GO:0009409 - response to cold
GO:0030145 - manganese ion binding
GO:0007165 - signal transduction
GO:0006995 - cellular response to nitrogen starvation
 TO:0000128 - harvest index
TO:0000303 - cold tolerance
TO:0000615 - abscisic acid sensitivity
TO:0000291 - carbohydrate content
TO:0000382 - 1000-seed weight
TO:0000449 - grain yield per plant
TO:0000011 - nitrogen sensitivity
TO:0000455 - seed set percent
TO:0000152 - panicle number
TO:0000371 - yield trait
TO:0000636 - relative shoot dry weight
TO:0000644 - relative root dry weight
TO:0000495 - chlorophyll content
TO:0001027 - net photosynthetic rate
TO:0006001 - salt tolerance
 PO:0009005 - root
Os07g0678600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g48100.1
CIPK09 OsCIPK09
CIPK9
OsCIPK9
OsSnRK3.10
SnRK3.10
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 9 CBL-interacting protein kinase 9
Sucrose nonfermenting-1-related protein kinase 3.10
 3 Vegetative organ - Root
Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0060359 - response to ammonium ion
GO:0005524 - ATP binding
GO:0009409 - response to cold
GO:0009651 - response to salt stress
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0009414 - response to water deprivation
GO:0004674 - protein serine/threonine kinase activity
GO:0030145 - manganese ion binding
 TO:0000276 - drought tolerance
TO:0000227 - root length
TO:0000303 - cold tolerance
TO:0006001 - salt tolerance
 PO:0009005 - root
Os03g0126800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g03510.2
LOC_Os03g03510.1
CIPK17 OsCIPK17
OsSnRK3.14
SnRK3.14
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 17 CBL-interacting protein kinase 17
Sucrose nonfermenting-1-related protein kinase 3.14
 5 Vegetative organ - Culm
Vegetative organ - Root
Character as QTL - Germination
Biochemical character
Tolerance and resistance - Disease resistance
Character as QTL - Plant growth activity
Tolerance and resistance - Stress tolerance
 GO:0010187 - negative regulation of seed germination
GO:0006952 - defense response
GO:0009414 - response to water deprivation
GO:0009651 - response to salt stress
GO:0046686 - response to cadmium ion
GO:0004674 - protein serine/threonine kinase activity
GO:0007165 - signal transduction
GO:0009408 - response to heat
GO:0005737 - cytoplasm
GO:0009409 - response to cold
GO:0006468 - protein amino acid phosphorylation
GO:0005524 - ATP binding
GO:0030145 - manganese ion binding
 TO:0000207 - plant height
TO:0000227 - root length
TO:0000578 - root fresh weight
TO:0006001 - salt tolerance
TO:0000352 - plant dry weight
TO:0000303 - cold tolerance
TO:0000259 - heat tolerance
TO:0000112 - disease resistance
TO:0000276 - drought tolerance
 PO:0009005 - root
Os05g0136200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g04550.1
DMI3 OsDMI3
OsCCaMK1
OsCCaMK
OsCCAMK
CCAMK
 DOESN'T MAKE INFECTIONS 3 DOESN'T MAKE INFECTIONS3
calcium and calmodulin-dependent protein kinase 1
Ca2+/calmodulin (CaM)-dependent protein kinase
CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE
 5 Character as QTL - Germination
Tolerance and resistance - Stress tolerance
Tolerance and resistance - Disease resistance
Vegetative organ - Root
 GO:0009734 - auxin mediated signaling pathway
GO:0009610 - response to symbiotic fungus
GO:0010030 - positive regulation of seed germination
GO:0005737 - cytoplasm
GO:0005634 - nucleus
GO:0009651 - response to salt stress
GO:0005524 - ATP binding
GO:0009789 - positive regulation of abscisic acid mediated signaling
GO:0048364 - root development
GO:0009737 - response to abscisic acid stimulus
GO:0010726 - positive regulation of hydrogen peroxide metabolic process
GO:0006979 - response to oxidative stress
GO:0004683 - calmodulin-dependent protein kinase activity
GO:0010729 - positive regulation of hydrogen peroxide biosynthetic process
GO:0019722 - calcium-mediated signaling
GO:0050832 - defense response to fungus
GO:0018107 - peptidyl-threonine phosphorylation
GO:0016021 - integral to membrane
GO:0006970 - response to osmotic stress
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0042542 - response to hydrogen peroxide
GO:0047484 - regulation of response to osmotic stress
GO:0005509 - calcium ion binding
GO:0030104 - water homeostasis
GO:0043408 - regulation of MAPKKK cascade
GO:0009738 - abscisic acid mediated signaling
GO:0009845 - seed germination
GO:0009414 - response to water deprivation
GO:0060267 - positive regulation of respiratory burst
 TO:0002657 - oxidative stress
TO:0000615 - abscisic acid sensitivity
TO:0006001 - salt tolerance
TO:0002672 - auxin content
TO:0000095 - osmotic response sensitivity
TO:0000656 - root development trait
TO:0000136 - relative water content
TO:0000276 - drought tolerance
TO:0000516 - relative root length
TO:0000074 - blast disease
TO:0000605 - hydrogen peroxide content
 PO:0007520 - root development stage
PO:0007057 - 0 seed germination stage
Os05g0489900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g41090.1
YUCCA1 OsYUCCA1
OsYUC1
YUC1
 YUCCA-LIKE GENE 1 (YUCCA-like gene)
 1 Biochemical character
Tolerance and resistance - Stress tolerance
Character as QTL - Yield and productivity
Vegetative organ - Root
Tolerance and resistance - Disease resistance
 GO:0048364 - root development
GO:0010229 - inflorescence development
GO:0004499 - flavin-containing monooxygenase activity
GO:0009609 - response to symbiotic bacterium
GO:0051607 - defense response to virus
GO:0034059 - response to anoxia
GO:0009737 - response to abscisic acid stimulus
GO:0009851 - auxin biosynthetic process
GO:0046686 - response to cadmium ion
GO:0046685 - response to arsenic
GO:0048830 - adventitious root development
GO:0009408 - response to heat
GO:0009414 - response to water deprivation
 TO:0000020 - black streak dwarf virus resistance
TO:0002672 - auxin content
TO:0000447 - filled grain number
TO:0000084 - root number
TO:0000276 - drought tolerance
TO:0000621 - inflorescence development trait
TO:0000428 - callus induction
TO:0000259 - heat tolerance
TO:0000557 - secondary branch number
TO:0000449 - grain yield per plant
TO:0000615 - abscisic acid sensitivity
TO:0000396 - grain yield
TO:0000656 - root development trait
TO:0000227 - root length
TO:0001013 - lateral root number
TO:0000578 - root fresh weight
TO:0001006 - adventitious root number
TO:0000031 - silicon sensitivity
 PO:0009105 - inflorescence branch meristem
PO:0020103 - flag leaf
Os01g0645400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g45760.1
LOC_Os01g45760.2
RBOHB rbohB
OsrbohB
Os rbohB
OsRbohB
OsNox1
Nox1
Os-RbohB
RbohB
OsRboh1
Rboh1
 RESPIRATORY BURST OXIDASE HOMOLOG B Respiratory Burst Oxidase Homolog B
Respiratory Burst Oxidase Homologue B
NADPH oxidase 1
 1 Vegetative organ - Root
Biochemical character
Character as QTL - Yield and productivity
Character as QTL - Germination
Tolerance and resistance - Stress tolerance
Tolerance and resistance - Disease resistance
Reproductive organ - Pollination, fertilization, fertility
 GO:0009751 - response to salicylic acid stimulus
GO:0009414 - response to water deprivation
GO:0009738 - abscisic acid mediated signaling
GO:0005509 - calcium ion binding
GO:0009408 - response to heat
GO:0010118 - stomatal movement
GO:0006952 - defense response
GO:0009626 - plant-type hypersensitive response
GO:0030104 - water homeostasis
GO:0002238 - response to molecule of fungal origin
GO:0009734 - auxin mediated signaling pathway
GO:0005886 - plasma membrane
GO:0010266 - response to vitamin B1
GO:0009566 - fertilization
GO:0050665 - hydrogen peroxide biosynthetic process
GO:0050832 - defense response to fungus
GO:0009413 - response to flooding
GO:0010115 - regulation of abscisic acid biosynthetic process
GO:0009687 - abscisic acid metabolic process
GO:0009753 - response to jasmonic acid stimulus
GO:0048364 - root development
GO:0043020 - NADPH oxidase complex
GO:0006979 - response to oxidative stress
GO:0009845 - seed germination
GO:0009737 - response to abscisic acid stimulus
GO:0009733 - response to auxin stimulus
GO:0042742 - defense response to bacterium
GO:0002679 - respiratory burst during defense response
GO:0006970 - response to osmotic stress
GO:0009651 - response to salt stress
GO:0043621 - protein self-association
GO:0016174 - NAD(P)H oxidase activity
GO:0016021 - integral to membrane
GO:0004601 - peroxidase activity
 TO:0000656 - root development trait
TO:0000163 - auxin sensitivity
TO:0000172 - jasmonic acid sensitivity
TO:0006002 - proline content
TO:0000136 - relative water content
TO:0000382 - 1000-seed weight
TO:0000430 - germination rate
TO:0002667 - abscisic acid content
TO:0000524 - submergence tolerance
TO:0000074 - blast disease
TO:0000615 - abscisic acid sensitivity
TO:0000112 - disease resistance
TO:0000175 - bacterial blight disease resistance
TO:0000276 - drought tolerance
TO:0006001 - salt tolerance
TO:0000095 - osmotic response sensitivity
TO:0000520 - stomatal closure rate
TO:0000605 - hydrogen peroxide content
TO:0002657 - oxidative stress
TO:0000439 - fungal disease resistance
TO:0000129 - false smut disease resistance
 PO:0025034 - leaf
Os01g0360200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g25820.2
LOC_Os01g25820.1
CDPK5 OsCDPK5
OsCPK5
CPK5
 CALCIUM-DEPENDENT PROTEIN KINASE 5 calcium-dependent protein kinase
 2 Vegetative organ - Root
Tolerance and resistance - Stress tolerance
Tolerance and resistance - Disease resistance
Biochemical character
 GO:0032874 - positive regulation of stress-activated MAPK cascade
GO:0009739 - response to gibberellin stimulus
GO:0005509 - calcium ion binding
GO:0002221 - pattern recognition receptor signaling pathway
GO:0009735 - response to cytokinin stimulus
GO:0009414 - response to water deprivation
GO:0009733 - response to auxin stimulus
GO:0002679 - respiratory burst during defense response
GO:0005634 - nucleus
GO:0016020 - membrane
GO:0050832 - defense response to fungus
GO:0009651 - response to salt stress
GO:0005524 - ATP binding
GO:0004674 - protein serine/threonine kinase activity
GO:0043068 - positive regulation of programmed cell death
GO:0006468 - protein amino acid phosphorylation
GO:0010618 - aerenchyma formation
 TO:0000074 - blast disease
TO:0006001 - salt tolerance
TO:0000166 - gibberellic acid sensitivity
TO:0000163 - auxin sensitivity
TO:0000167 - cytokinin sensitivity
TO:0000276 - drought tolerance
TO:0000605 - hydrogen peroxide content
 PO:0000258 - root cortex
Os02g0685900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g46090.1
COW1 OsCOW1
oscow1
OsYUC8
YUC8
NAL7
OsNAL7
OsYUCCA8
YUCCA8
FMO
OsFMO(t)
REIN7
YUC8/REIN7
 CONSTITUTIVELY WILTED 1 CONSTITUTIVELY WILTED1
Constitutively wilted 1
NARROW LEAF7
NARROW LEAF 7
YUCCA-LIKE GENE 8
flavin monooxygenase
rice ethylene-insensitive 7
 3 Vegetative organ - Leaf
Vegetative organ - Root
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
 GO:0009851 - auxin biosynthetic process
GO:0000139 - Golgi membrane
GO:0009873 - ethylene mediated signaling pathway
GO:0048364 - root development
GO:0004499 - flavin-containing monooxygenase activity
GO:0005654 - nucleoplasm
GO:0009409 - response to cold
GO:0009612 - response to mechanical stimulus
GO:0047434 - indolepyruvate decarboxylase activity
GO:0022603 - regulation of anatomical structure morphogenesis
GO:0010229 - inflorescence development
GO:0030104 - water homeostasis
GO:0009734 - auxin mediated signaling pathway
GO:0050661 - NADP or NADPH binding
GO:0050660 - FAD binding
GO:0048825 - cotyledon development
GO:0009911 - positive regulation of flower development
GO:0007275 - multicellular organismal development
GO:0005829 - cytosol
GO:0051607 - defense response to virus
GO:0048366 - leaf development
 TO:0000655 - leaf development trait
TO:0002665 - root hair length
TO:0000148 - viral disease resistance
TO:0002672 - auxin content
TO:0000227 - root length
TO:0000303 - cold tolerance
TO:0000492 - leaf shape
TO:0000471 - root penetration index
TO:0000656 - root development trait
 PO:0020141 - stem node
PO:0007520 - root development stage
PO:0000025 - root tip
PO:0009047 - stem
PO:0025034 - leaf
Os03g0162000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g06654.2
LOC_Os03g06654.1
CKT1 OHK5
HK
OsHK6
HK6
Crl1a
Ohk5
OsHK1
OsCKT1
ABL1
OsABL1
 CYTOKININ TOLERANT 1 histidine kinase 6
His kinase 6
cytokinin tolerant 1
adaxial-abaxial bipolar leaf1
ADAXIAL-ABAXIAL BIPOLAR LEAF 1
 2 Character as QTL - Plant growth activity
Reproductive organ - Pollination, fertilization, fertility
Biochemical character
Reproductive organ - Heading date
Vegetative organ - Leaf
Vegetative organ - Root
 GO:0048831 - regulation of shoot development
GO:0009909 - regulation of flower development
GO:0009736 - cytokinin mediated signaling
GO:0018106 - peptidyl-histidine phosphorylation
GO:0051302 - regulation of cell division
GO:0000155 - two-component sensor activity
GO:0004673 - protein histidine kinase activity
GO:0048366 - leaf development
GO:0016020 - membrane
GO:0005783 - endoplasmic reticulum
GO:0005982 - starch metabolic process
GO:0005985 - sucrose metabolic process
GO:0009735 - response to cytokinin stimulus
GO:0009884 - cytokinin receptor activity
GO:0010109 - regulation of photosynthesis
GO:0015995 - chlorophyll biosynthetic process
GO:0043455 - regulation of secondary metabolic process
GO:0048364 - root development
GO:0048573 - photoperiodism, flowering
GO:0005524 - ATP binding
GO:0000156 - two-component response regulator activity
GO:0006355 - regulation of transcription, DNA-dependent
 TO:0000656 - root development trait
TO:0000655 - leaf development trait
TO:0001015 - photosynthetic rate
TO:0000522 - stomatal conductance
TO:0000055 - leaf lamina pubescence
TO:0000135 - leaf length
TO:0002758 - flag leaf lamina width
TO:0000399 - grain thickness
TO:0002759 - grain number
TO:0000040 - panicle length
TO:0000316 - photosynthetic ability
TO:0002637 - leaf size
TO:0000485 - sterility related trait
TO:0000152 - panicle number
TO:0002616 - flowering time
TO:0000137 - days to heading
TO:0006020 - shoot apical meristem development
TO:0000654 - shoot development trait
TO:0000622 - flower development trait
TO:0000373 - inflorescence anatomy and morphology trait
TO:0000370 - leaf width
TO:0000357 - growth and development trait
TO:0000167 - cytokinin sensitivity
 PO:0007520 - root development stage
PO:0000025 - root tip
PO:0005029 - root primordium
PO:0000027 - lateral root tip
PO:0020121 - lateral root
Os02g0738400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g50480.1
AHP1 OHP1
HPt
OsAHP1
Hpt2
Ohp1
OsHP2
HP2
OsHpt2
OsHPt2
OsHP02
 HISTIDINE CONTAINING PHOSPHOTRANSMITTER 1 histidine containing phosphotransmitter
authentic His-containing phosphotransfer protein 1
Authentic Histidine Phosphotransfer protein 1
 8 Reproductive organ - Pollination, fertilization, fertility
Biochemical character
Vegetative organ - Leaf
Vegetative organ - Culm
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
 GO:0000160 - two-component signal transduction system (phosphorelay)
GO:0009723 - response to ethylene stimulus
GO:0004871 - signal transducer activity
GO:0009736 - cytokinin mediated signaling
GO:0009735 - response to cytokinin stimulus
 TO:0006001 - salt tolerance
TO:0000420 - fertility related trait
TO:0000095 - osmotic response sensitivity
TO:0000173 - ethylene sensitivity
TO:0000249 - leaf senescence
TO:0000227 - root length
TO:0000207 - plant height
TO:0000346 - tiller number
TO:0000167 - cytokinin sensitivity
TO:0000656 - root development trait
 PO:0000230 - inflorescence meristem
PO:0020148 - shoot apical meristem
Os08g0557700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g44350.1
AHP2 OHP2
HPt
OsAHP2 Hpt3
Ohp2
OsHP1
HP1
OsHpt3
OsHP01
 HISTIDINE CONTAINING PHOSPHOTRANSMITTER 2 histidine containing phosphotransmitter
authentic His-containing phosphotransfer protein 2
histidine phosphotransfer protein 2
 9 Tolerance and resistance - Stress tolerance
Reproductive organ - Pollination, fertilization, fertility
Vegetative organ - Culm
Vegetative organ - Leaf
Biochemical character
Vegetative organ - Root
 GO:0000160 - two-component signal transduction system (phosphorelay)
GO:0004871 - signal transducer activity
GO:0009723 - response to ethylene stimulus
GO:0009735 - response to cytokinin stimulus
GO:0009736 - cytokinin mediated signaling
 TO:0000207 - plant height
TO:0000420 - fertility related trait
TO:0000656 - root development trait
TO:0000173 - ethylene sensitivity
TO:0000346 - tiller number
TO:0006001 - salt tolerance
TO:0000167 - cytokinin sensitivity
TO:0000227 - root length
TO:0000095 - osmotic response sensitivity
TO:0000249 - leaf senescence
 PO:0020148 - shoot apical meristem
PO:0000230 - inflorescence meristem
Os09g0567400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os09g39400.2
LOC_Os09g39400.1
RR21 OsRR21
Rrb1
Orr1
OsRR19
RR19
OsRRB1
ORR1
OsRRB4
RRB4
 B-TYPE RESPONSE REGULATOR 1 B-type response regulator 1
B-type RR 1
ORYZA SATIVA RESPONSE REGULATOR 1
 3 Tolerance and resistance - Stress tolerance
Reproductive organ - panicle
Vegetative organ - Root
Heterochrony
Reproductive organ - Inflorescence
 GO:0009409 - response to cold
GO:0009735 - response to cytokinin stimulus
GO:0045449 - regulation of transcription
GO:0000160 - two-component signal transduction system (phosphorelay)
GO:0009723 - response to ethylene stimulus
GO:0009736 - cytokinin mediated signaling
GO:0000156 - two-component response regulator activity
GO:0010229 - inflorescence development
GO:0009737 - response to abscisic acid stimulus
GO:0009753 - response to jasmonic acid stimulus
GO:0009414 - response to water deprivation
GO:0005634 - nucleus
 TO:0000615 - abscisic acid sensitivity
TO:0000303 - cold tolerance
TO:0000276 - drought tolerance
TO:0006031 - inflorescence size
TO:0000621 - inflorescence development trait
TO:0000040 - panicle length
TO:0000547 - primary branch number
TO:0000173 - ethylene sensitivity
TO:0000167 - cytokinin sensitivity
TO:0000557 - secondary branch number
TO:0000172 - jasmonic acid sensitivity
 PO:0001083 - inflorescence development stage
PO:0008037 - seedling
PO:0009089 - endosperm
PO:0009006 - shoot system
PO:0025034 - leaf
PO:0009010 - seed
Os03g0224200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g12350.1
LOC_Os03g12350.2
LOC_Os03g12350.4
RR2 rr2
Osrr2
OsRR2
Rra10
OsRRA10
 A-TYPE RESPONSE REGULATOR 2 A-TYPE response regulator 2
Type A response regulator 2
A-type RR 10
 2 Vegetative organ - Root
Tolerance and resistance - Stress tolerance
 GO:0045449 - regulation of transcription
GO:0009269 - response to desiccation
GO:0006970 - response to osmotic stress
GO:0048364 - root development
GO:0045454 - cell redox homeostasis
GO:0009736 - cytokinin mediated signaling
GO:0070482 - response to oxygen levels
GO:0000156 - two-component response regulator activity
GO:0009414 - response to water deprivation
GO:0009733 - response to auxin stimulus
GO:0009735 - response to cytokinin stimulus
GO:0009408 - response to heat
GO:0000160 - two-component signal transduction system (phosphorelay)
 TO:0000507 - osmotic adjustment capacity
TO:0000095 - osmotic response sensitivity
TO:0000167 - cytokinin sensitivity
TO:0000656 - root development trait
TO:0000015 - oxygen sensitivity
TO:0000259 - heat tolerance
TO:0000163 - auxin sensitivity
TO:0000276 - drought tolerance
 PO:0007504 - crown root primordium formation stage
Os02g0557800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g35180.1
AM1 OsAM1
prx53
OsPRX53
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 1 class III peroxidase 53
 4 Vegetative organ - Root
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0009610 - response to symbiotic fungus
GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os04g0134800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os04g04750.1
AM2 OsAM2
OsPI8-1a
PI8-1a
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 2 proteinase inhibitor 8-1a
 8 Tolerance and resistance - Stress tolerance
Vegetative organ - Root
 GO:0009610 - response to symbiotic fungus
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0048658 - tapetal layer development
GO:0012501 - programmed cell death
GO:0009845 - seed germination
GO:0009611 - response to wounding
 TO:0000357 - growth and development trait
 PO:0009047 - stem
PO:0020148 - shoot apical meristem
PO:0001004 - anther development stage
PO:0007057 - 0 seed germination stage
PO:0020002 - anther wall endothecium
Os08g0441200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g34249.1
AM3 OsAM3
OsLysMe2
LysMe2
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 3 LysM extracellular 2
lysin motif extracellular 2
lysin motif extracellular protein 2
 1 Vegetative organ - Root
 GO:0048046 - apoplast
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0044111 - development during symbiotic interaction
GO:0052031 - modulation by symbiont of host defense response
GO:0009610 - response to symbiotic fungus
GO:0050777 - negative regulation of immune response
GO:0010200 - response to chitin
GO:0008061 - chitin binding
 PO:0000258 - root cortex
Os01g0783000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g57400.1
AM10 AM10
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 10 5 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os05g0289700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g22300.1
AM11 AM11
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 11 6 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0009610 - response to symbiotic fungus
 Os06g0305400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g20120.1
LOC_Os06g20110.1
AM14 OsAM14
OsARK1
ARK1
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 14 ARBUSCULAR RECEPTOR-LIKE KINASE 1
 11 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0075328 - formation by symbiont of arbuscule for nutrient acquisition from host
GO:0009610 - response to symbiotic fungus
 Os11g0448200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os11g26140.1
AM15 OsAM15
OsLysMe1
LysMe1
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 15 lysin motif extracellular protein 1
 1 Vegetative organ - Root
 GO:0052031 - modulation by symbiont of host defense response
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0008061 - chitin binding
GO:0009610 - response to symbiotic fungus
GO:0050777 - negative regulation of immune response
GO:0010200 - response to chitin
GO:0044111 - development during symbiotic interaction
GO:0048046 - apoplast
 PO:0000258 - root cortex
Os01g0782901 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g57390.1
GRAS16 AM18
OsAM1
OsGRAS-16
OsGRAS16
GRAS-16
PsiOsGRAS4
PsiGRAS4
 GRAS PROTEIN 16 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 18
GRAS protein 16
 3 Vegetative organ - Root
Tolerance and resistance - Stress tolerance
Tolerance and resistance - Disease resistance
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0042742 - defense response to bacterium
GO:0009737 - response to abscisic acid stimulus
GO:0009651 - response to salt stress
GO:0050832 - defense response to fungus
 TO:0000615 - abscisic acid sensitivity
TO:0006001 - salt tolerance
TO:0000255 - sheath blight disease resistance
TO:0000175 - bacterial blight disease resistance
 - LOC_Os03g40080
AM20 AM20
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 20 4 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os04g0280600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os04g21160.1
AM24 AM24
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 24 2 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os02g0124300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g03190.1
AM25 AM25
OsNIP1;4
NIP1-4
OsNIP1.4
NIP1.4
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 25 Aquaporin NIP1-4
NOD26-like intrinsic protein 1-4
 6 Biochemical character
Vegetative organ - Root
 GO:0016021 - integral to membrane
GO:0005215 - transporter activity
GO:0016020 - membrane
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0055085 - transmembrane transport
 Os06g0552700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g35930.1
AM26 AM26
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 26 12 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os12g0487250 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 )
AM29 AM29
OsRING405
RING405
OsC3HC4_066
C3HC4_066
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 29 RING-type E3 ubiquitin ligase 405
C3HC4-type RING zinc finger protein 066
 6 Vegetative organ - Root
Biochemical character
 GO:0008270 - zinc ion binding
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0016740 - transferase activity
 Os06g0535900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g34470.1
AM31 AM31
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 31 2 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os02g0124000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g03150.1
AM34 AM34
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 34 10 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os10g0332000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os10g18510.1
AM39 AM39
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 39 4 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os04g0207600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os04g13090.1
AM42 AM42
 ARBUSCULAR MYCORRHIZAL SPECIFIC MARKER 42 3 Vegetative organ - Root
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
 Os03g0582300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g38600.1
PT8 OsPT8
PHT1-8
OsPht1;8
Pht1;8
PHT1;8
OsPHT1;8
 PHOSPHATE TRANSPORTER 8 Probable inorganic phosphate transporter 1-8
Plant Phosphate Transporter 1;8
 10 Tolerance and resistance - Disease resistance
Vegetative organ - Culm
Tolerance and resistance - Stress tolerance
Biochemical character
Vegetative organ - Root
 GO:0046688 - response to copper ion
GO:0016021 - integral to membrane
GO:0055085 - transmembrane transport
GO:0005886 - plasma membrane
GO:0002237 - response to molecule of bacterial origin
GO:0048831 - regulation of shoot development
GO:0050832 - defense response to fungus
GO:0005783 - endoplasmic reticulum
GO:0042742 - defense response to bacterium
GO:0002221 - pattern recognition receptor signaling pathway
GO:0002238 - response to molecule of fungal origin
GO:0031348 - negative regulation of defense response
GO:0009733 - response to auxin stimulus
GO:0016036 - cellular response to phosphate starvation
GO:0009737 - response to abscisic acid stimulus
GO:0046685 - response to arsenic
GO:0015293 - symporter activity
GO:0006817 - phosphate transport
GO:0016020 - membrane
GO:0005315 - inorganic phosphate transmembrane transporter activity
GO:0042594 - response to starvation
 TO:0000163 - auxin sensitivity
TO:0000102 - phosphorus sensitivity
TO:0000021 - copper sensitivity
TO:0000043 - root anatomy and morphology trait
TO:0000175 - bacterial blight disease resistance
TO:0000074 - blast disease
TO:0000615 - abscisic acid sensitivity
 PO:0025164 - root epidermal cell
Os10g0444700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os10g30790.1
LOC_Os10g30790.2
PT11 OsPT11
PHT1-11
OsPht1;11
ORYsa;PHT1;11
 PHOSPHATE TRANSPORTER 11 Inorganic phosphate transporter 1-11
PHOSPHATE TRANSPORTER1;11
 1 Vegetative organ - Root
Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0007623 - circadian rhythm
GO:0009642 - response to light intensity
GO:0009610 - response to symbiotic fungus
GO:0005886 - plasma membrane
GO:0009737 - response to abscisic acid stimulus
GO:0009733 - response to auxin stimulus
GO:0009739 - response to gibberellin stimulus
GO:0005215 - transporter activity
GO:0006817 - phosphate transport
GO:0015293 - symporter activity
GO:0016020 - membrane
GO:0055085 - transmembrane transport
GO:0016021 - integral to membrane
GO:0006810 - transport
GO:0075328 - formation by symbiont of arbuscule for nutrient acquisition from host
GO:0009735 - response to cytokinin stimulus
 TO:0000167 - cytokinin sensitivity
TO:0000460 - light intensity sensitivity
TO:0000102 - phosphorus sensitivity
TO:0000166 - gibberellic acid sensitivity
TO:0000163 - auxin sensitivity
TO:0000615 - abscisic acid sensitivity
 PO:0009049 - inflorescence
PO:0000025 - root tip
PO:0009029 - stamen
PO:0009010 - seed
PO:0009005 - root
PO:0025034 - leaf
PO:0020031 - radicle
PO:0020104 - leaf sheath
PO:0007057 - 0 seed germination stage
PO:0009089 - endosperm
Os01g0657100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g46860.1
GER5 OsGLP1
GLP1
GER1
GLP110
OsGER1
OsGER5
OsGLP8-14
GLP8-14
OsCDP8.14
CDP8.14
 GERMIN-LIKE PROTEIN 5 Germin-like protein 8-14
Germin-like protein 5
Germin-like protein 1
Germin protein type 1
germin-like protein1
cupin domain protein 8.14
 8 Vegetative organ - Leaf
Seed - Physiological traits - Storage substances
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
Reproductive organ - panicle
Vegetative organ - Culm
Tolerance and resistance - Disease resistance
 GO:0010224 - response to UV-B
GO:0051555 - flavonol biosynthetic process
GO:0005829 - cytosol
GO:0010229 - inflorescence development
GO:0010109 - regulation of photosynthesis
GO:0051553 - flavone biosynthetic process
GO:0009812 - flavonoid metabolic process
GO:0010941 - regulation of cell death
GO:0016023 - cytoplasmic membrane-bounded vesicle
GO:0030145 - manganese ion binding
GO:0045735 - nutrient reservoir activity
GO:0048046 - apoplast
GO:0009409 - response to cold
 TO:0001027 - net photosynthetic rate
TO:0000621 - inflorescence development trait
TO:0000601 - UV-B light sensitivity
TO:0000605 - hydrogen peroxide content
TO:0000207 - plant height
TO:0000303 - cold tolerance
TO:0000063 - mimic response
TO:0000206 - leaf angle
TO:0000227 - root length
 PO:0020104 - leaf sheath
PO:0001083 - inflorescence development stage
Os08g0460000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g35760.1
RL9 rl9
SLL1/RL9
SLL1
OsSLL1
OsADD1
ADD1
AH2
OsAH2
CL1
OsCL1
OsKAN1
KAN1
 ROLLED LEAF 9 SHALLOT-LIKE1
SHALLOT-LIKE 1
ROLLED LEAF9
anther dehiscence defected 1
abnormal hull 2
curling leaf 1
KANADI1
OsKANADI1
 9 Seed - Morphological traits - Grain shape
Seed - Morphological traits
Vegetative organ - Root
Reproductive organ - Inflorescence
Reproductive organ - panicle
Character as QTL - Grain quality
Vegetative organ - Culm
Vegetative organ - Leaf
Coloration - Chlorophyll
Character as QTL - Yield and productivity
Character as QTL - Plant growth activity
Reproductive organ - Spikelet, flower, glume, awn
Other
 GO:0042127 - regulation of cell proliferation
GO:0045892 - negative regulation of transcription, DNA-dependent
GO:0048366 - leaf development
GO:0005634 - nucleus
GO:0048437 - floral organ development
GO:0003677 - DNA binding
GO:0003682 - chromatin binding
GO:0009739 - response to gibberellin stimulus
GO:0001558 - regulation of cell growth
GO:0030154 - cell differentiation
GO:0048653 - anther development
GO:0009555 - pollen development
GO:0010229 - inflorescence development
GO:0010088 - phloem development
GO:0010158 - abaxial cell fate specification
GO:0006355 - regulation of transcription, DNA-dependent
GO:0009685 - gibberellin metabolic process
GO:0006351 - transcription, DNA-dependent
GO:0009957 - epidermal cell fate specification
GO:0045487 - gibberellin catabolic process
GO:0080006 - internode patterning
GO:0051510 - regulation of unidimensional cell growth
GO:0048316 - seed development
GO:0012501 - programmed cell death
GO:0048364 - root development
 TO:0000152 - panicle number
TO:0001027 - net photosynthetic rate
TO:0000295 - chlorophyll-b content
TO:0000162 - seed quality
TO:0002757 - flag leaf length
TO:0000207 - plant height
TO:0000396 - grain yield
TO:0000370 - leaf width
TO:0000135 - leaf length
TO:0000326 - leaf color
TO:0000382 - 1000-seed weight
TO:0002681 - leaf curling
TO:0000316 - photosynthetic ability
TO:0000462 - gelatinization temperature
TO:0000474 - glume opening
TO:0000166 - gibberellic acid sensitivity
TO:0002675 - gibberellic acid content
TO:0000657 - spikelet anatomy and morphology trait
TO:0000655 - leaf development trait
TO:0000019 - seedling height
TO:0000165 - panicle exsertion
TO:0000495 - chlorophyll content
TO:0000145 - internode length
TO:0000449 - grain yield per plant
TO:0000455 - seed set percent
TO:0000040 - panicle length
TO:0000079 - lemma and palea anatomy and morphology trait
TO:0000598 - protein content
TO:0000391 - seed size
TO:0000421 - pollen fertility
TO:0002689 - leaf sheath length
TO:0000227 - root length
TO:0001012 - lateral root length
TO:0000587 - endosperm quality
TO:0006022 - floral organ development trait
TO:0000085 - leaf rolling
TO:0000053 - pollen sterility
TO:0000072 - awn length
TO:0000397 - grain size
TO:0000653 - seed development trait
TO:0000656 - root development trait
TO:0001006 - adventitious root number
TO:0000196 - amylose content
TO:0000734 - grain length
TO:0000211 - gel consistency
 PO:0020104 - leaf sheath
PO:0006019 - leaf abaxial epidermis
PO:0020142 - stem internode
PO:0001007 - pollen development stage
PO:0025426 - phloem development stage
PO:0001170 - seed development stage
PO:0009051 - spikelet
PO:0025585 - floral organ formation stage
PO:0000017 - vascular leaf primordium
PO:0020148 - shoot apical meristem
PO:0009005 - root
PO:0007520 - root development stage
PO:0009049 - inflorescence
PO:0020141 - stem node
PO:0009047 - stem
PO:0001050 - leaf development stage
PO:0001004 - anther development stage
PO:0000293 - guard cell
PO:0025034 - leaf
Os09g0395300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os09g23200.1
DMAS1 OsDMAS1
OsAKR5
AKR5
 DEOXYMUGINEIC ACID SYNTHASE 1 sativa deoxymugineic acid synthase1
Deoxymugineic acid synthase1
Deoxymugineic acid synthase 1
deoxymugineic acid synthase1
Group 5 Aldo-Keto Reductase
 3 Vegetative organ - Root
Tolerance and resistance - Stress tolerance
 GO:0010040 - response to iron(II) ion
GO:0016491 - oxidoreductase activity
GO:0010106 - cellular response to iron ion starvation
GO:0006826 - iron ion transport
 TO:0000224 - iron sensitivity
 PO:0006203 - pericycle
PO:0005421 - parenchyma
PO:0006036 - root epidermis
PO:0005417 - phloem
PO:0005020 - vascular bundle
PO:0005772 - exodermis
PO:0009005 - root
PO:0000258 - root cortex
PO:0020124 - root stele
PO:0000071 - companion cell
Os03g0237100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g13390.2
NAAT1 OsNAAT1
 NICOTINAMINE AMINOTRANSFERASE 1 sativa nicotianamine aminotransferase 1
nicotianamine aminotransferase
 2 Tolerance and resistance - Stress tolerance
Vegetative organ - Root
 GO:0009414 - response to water deprivation
GO:0006826 - iron ion transport
GO:0008652 - cellular amino acid biosynthetic process
GO:0010106 - cellular response to iron ion starvation
GO:0034224 - cellular response to zinc ion starvation
GO:0046394 - carboxylic acid biosynthetic process
GO:0016847 - 1-aminocyclopropane-1-carboxylate synthase activity
GO:0033855 - nicotianamine aminotransferase activity
GO:0009739 - response to gibberellin stimulus
GO:0046688 - response to copper ion
GO:0042594 - response to starvation
GO:0009536 - plastid
GO:0009058 - biosynthetic process
GO:0008483 - transaminase activity
GO:0006519 - cellular amino acid and derivative metabolic process
 TO:0000021 - copper sensitivity
TO:0000224 - iron sensitivity
TO:0000276 - drought tolerance
TO:0000351 - zinc sensitivity
TO:0000166 - gibberellic acid sensitivity
 PO:0006036 - root epidermis
PO:0009006 - shoot system
PO:0006203 - pericycle
PO:0000071 - companion cell
PO:0009010 - seed
PO:0005772 - exodermis
PO:0009005 - root
PO:0000258 - root cortex
PO:0000272 - protoxylem
PO:0020124 - root stele
Os02g0306401 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g20360.2
LOC_Os02g20360.1
CKX4 OsCKX4
ckx4
OsSCRM
OsSCRM2
SCRM
SCRM2
 CYTOKININ OXIDASE/DEHYDROGENASE 4 Putative cytokinin dehydrogenase 4
cytokinin oxidase 4
 1 Character as QTL - Grain quality
Vegetative organ - Culm
Biochemical character
Character as QTL - Yield and productivity
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
Tolerance and resistance - Disease resistance
Seed - Morphological traits - Grain shape
 GO:0009735 - response to cytokinin stimulus
GO:0042594 - response to starvation
GO:0009823 - cytokinin catabolic process
GO:0009734 - auxin mediated signaling pathway
GO:0009736 - cytokinin mediated signaling
GO:0016491 - oxidoreductase activity
GO:0005615 - extracellular space
GO:0008762 - UDP-N-acetylmuramate dehydrogenase activity
GO:0009690 - cytokinin metabolic process
GO:0050660 - FAD binding
GO:0009725 - response to hormone stimulus
GO:0032940 - secretion by cell
GO:0009733 - response to auxin stimulus
GO:0009753 - response to jasmonic acid stimulus
GO:0016023 - cytoplasmic membrane-bounded vesicle
GO:0022900 - electron transport chain
GO:0051607 - defense response to virus
GO:0048364 - root development
GO:0019139 - cytokinin dehydrogenase activity
 TO:0000734 - grain length
TO:0000011 - nitrogen sensitivity
TO:0000163 - auxin sensitivity
TO:0002660 - cytokinin content
TO:0000019 - seedling height
TO:0000430 - germination rate
TO:0000449 - grain yield per plant
TO:0000382 - 1000-seed weight
TO:0000402 - grain width
TO:0000455 - seed set percent
TO:0000346 - tiller number
TO:0000207 - plant height
TO:0002685 - crown root number
TO:0000020 - black streak dwarf virus resistance
TO:0000148 - viral disease resistance
TO:0000456 - spikelet number
TO:0006032 - panicle size
TO:0000656 - root development trait
TO:0000227 - root length
TO:0000401 - plant growth hormone sensitivity
TO:0000172 - jasmonic acid sensitivity
TO:0000167 - cytokinin sensitivity
 PO:0009105 - inflorescence branch meristem
PO:0009005 - root
PO:0007520 - root development stage
PO:0025034 - leaf
Os01g0940000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g71310.1
HAP5G OsHAP5G
NF-YC
CBF-C
OsNF-YC3
Os-NF-YC3
NF-YC3
NFYC3
 HAP5G SUBUNIT OF CCAAT-BOX BINDING COMPLEX Nuclear factor Y C3 subunit
Nuclear factor Y C subunit 3
NUCLEAR FACTOR-Y subunit C3
NUCLEAR FACTOR-Y subunit NF-YC3
NF-YC subunit 3
NF-YC family 3
 4 Vegetative organ - Root
Other
 GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0075328 - formation by symbiont of arbuscule for nutrient acquisition from host
GO:0006355 - regulation of transcription, DNA-dependent
GO:0016602 - CCAAT-binding factor complex
GO:0043565 - sequence-specific DNA binding
GO:0005634 - nucleus
GO:0006350 - transcription
GO:0005737 - cytoplasm
GO:0009610 - response to symbiotic fungus
 TO:0000552 - shoot dry weight
TO:0000636 - relative shoot dry weight
TO:0000511 - phosphorus uptake
 PO:0009005 - root
Os04g0683400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os04g58680.1
DEP1 OsDEP1
EP
qPE9-1
DN1
DEP1/DN1/qPE9-1
qNGR9
qDEP1
RGG4/DEP1/DN1/qPE9-1/OsGGC3
RGG4
OsDN1
OsGGC3
GGC3
 DENSE AND ERECT PANICLE 1 dense and erect panicle 1
erect-pose panicle
DENSE PANICLE 1
DENSE AND ERECT PANICLE1
DENSE AND ERECT PANICLES 1
G gamma subunit DEP1
Heterotrimeric G Protein gamma4 Subunit
 9 Vegetative organ - Root
Reproductive organ - Panicle, Mode of branching
Tolerance and resistance - Stress tolerance
Seed - Morphological traits - Grain shape
Reproductive organ - Heading date
Vegetative organ - Culm
Character as QTL - Yield and productivity
 GO:0010729 - positive regulation of hydrogen peroxide biosynthetic process
GO:0005882 - intermediate filament
GO:0010618 - aerenchyma formation
GO:0035330 - regulation of hippo signaling cascade
GO:0043068 - positive regulation of programmed cell death
GO:0051171 - regulation of nitrogen compound metabolic process
GO:0009409 - response to cold
GO:0005634 - nucleus
GO:0005886 - plasma membrane
GO:0007186 - G-protein coupled receptor protein signaling pathway
GO:0009414 - response to water deprivation
GO:0009651 - response to salt stress
GO:0048573 - photoperiodism, flowering
GO:0010229 - inflorescence development
 TO:0000734 - grain length
TO:0000043 - root anatomy and morphology trait
TO:0002759 - grain number
TO:0000605 - hydrogen peroxide content
TO:0000040 - panicle length
TO:0000397 - grain size
TO:0000456 - spikelet number
TO:0000276 - drought tolerance
TO:0000396 - grain yield
TO:0000455 - seed set percent
TO:0000625 - spikelet density
TO:0000050 - inflorescence branching
TO:0000152 - panicle number
TO:0000207 - plant height
TO:0000382 - 1000-seed weight
TO:0000137 - days to heading
TO:0002731 - grain length to width ratio
TO:0000303 - cold tolerance
TO:0006001 - salt tolerance
TO:0000621 - inflorescence development trait
 Os09g0441900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os09g26999.1
LOC_Os09g26999.3
LOC_Os09g26999.2
DLT dlt
OsGRAS32
OsDLT
OsDLT1
DTL1
OsGRAS-32
OsGRAS32
GRAS-32
GRAS32
SMOS2/DLT
SMOS2
OsSMOS2
OsGS6
GS6
DLT/GS6/SMOS2
 DWARF AND LOW-TILLERING GRAS protein 32
SMALL ORGAN SIZE 2
 6 Character as QTL - Yield and productivity
Tolerance and resistance - Stress tolerance
Character as QTL - Plant growth activity
Vegetative organ - Culm
Seed - Morphological traits - Grain shape
Vegetative organ - Root
Reproductive organ - Heading date
Vegetative organ - Leaf
Seed - Morphological traits
 GO:0010422 - regulation of brassinosteroid biosynthetic process
GO:0080006 - internode patterning
GO:0016131 - brassinosteroid metabolic process
GO:0006351 - transcription, DNA-dependent
GO:0051302 - regulation of cell division
GO:0009742 - brassinosteroid mediated signaling
GO:0007275 - multicellular organismal development
GO:0010229 - inflorescence development
GO:0009734 - auxin mediated signaling pathway
GO:0000226 - microtubule cytoskeleton organization
GO:0008283 - cell proliferation
GO:0009755 - hormone-mediated signaling
GO:0005634 - nucleus
GO:0009741 - response to brassinosteroid stimulus
GO:0010928 - regulation of auxin mediated signaling pathway
GO:0006355 - regulation of transcription, DNA-dependent
 TO:0002676 - brassinosteroid content
TO:0000326 - leaf color
TO:0000040 - panicle length
TO:0002637 - leaf size
TO:0000391 - seed size
TO:0002602 - pistil size
TO:0002601 - stamen size
TO:0000227 - root length
TO:0002684 - plant cell size
TO:0001035 - stem width
TO:0000207 - plant height
TO:0000346 - tiller number
TO:0000397 - grain size
TO:0000357 - growth and development trait
TO:0000621 - inflorescence development trait
TO:0000145 - internode length
TO:0000019 - seedling height
TO:0000576 - stem length
TO:0000329 - tillering ability
TO:0002688 - leaf lamina joint bending
TO:0002616 - flowering time
TO:0000152 - panicle number
TO:0000011 - nitrogen sensitivity
TO:0000206 - leaf angle
TO:0002677 - brassinosteroid sensitivity
 PO:0001083 - inflorescence development stage
Os06g0127800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g03710.1
HSFA7 OsHsfA7
OsHsf-01
HSFA6B
HSF01
OsHSF1
HSF1
OsEnS-9
OsHsfA7a
HsfA7a
 HEAT STRESS TRANSCRIPTION FACTOR A7 Heat stress transcription factor A7
Heat stress transcription factor A-6a
Heat stress transcription factor 1
endosperm-specific gene 9
 1 Vegetative organ - Root
Tolerance and resistance - Stress tolerance
 GO:0009651 - response to salt stress
GO:0009628 - response to abiotic stimulus
GO:0003700 - transcription factor activity
GO:0006950 - response to stress
GO:0005634 - nucleus
GO:0009414 - response to water deprivation
GO:0043565 - sequence-specific DNA binding
GO:0005739 - mitochondrion
GO:0006350 - transcription
GO:0006355 - regulation of transcription, DNA-dependent
 TO:0000168 - abiotic stress trait
TO:0002665 - root hair length
TO:0006001 - salt tolerance
TO:0001013 - lateral root number
TO:0000276 - drought tolerance
TO:0000306 - root thickness
TO:0001012 - lateral root length
TO:0000227 - root length
 PO:0009049 - inflorescence
PO:0009089 - endosperm
PO:0009072 - plant ovary
PO:0020104 - leaf sheath
PO:0025034 - leaf
PO:0009009 - plant embryo
PO:0009005 - root
Os01g0571300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g39020.1
ERF3 AP37
OsAP37
OsERF3
OsERF#075
OsERF075
OsERF75
ERF75
AP2/EREBP#004
AP2/EREBP4
OsBIERF2
BIERF2
DLN23
OsDLN23
 ETHYLENE-RESPONSIVE ELEMENT-BINDING FACTOR 3 Apetela2 transcription factor 37
ethylene response factor 3
Ethylene responsive factor 3
ethylene response factor 75
APETALA2/ethylene-responsive element binding protein 4
benzothiadiazole (BTH)-induced ethylene responsive transcriptional factor 2
benzothiadiazole-induced ethylene responsive transcriptional factor 2
BTH-induced ethylene responsive transcriptional factor 2
ethylene-responsive element binding factor 3
APETALA37
DLN repressor 23
DLN motif protein 23
 1 Tolerance and resistance - Stress tolerance
Vegetative organ - Root
Character as QTL - Yield and productivity
Other
 GO:0009414 - response to water deprivation
GO:0009873 - ethylene mediated signaling pathway
GO:0009735 - response to cytokinin stimulus
GO:0009733 - response to auxin stimulus
GO:0005634 - nucleus
GO:0006351 - transcription, DNA-dependent
GO:0009736 - cytokinin mediated signaling
GO:0048364 - root development
GO:0003677 - DNA binding
GO:0009651 - response to salt stress
GO:0010366 - negative regulation of ethylene biosynthetic process
GO:0003700 - transcription factor activity
 TO:0000163 - auxin sensitivity
TO:0000164 - stress trait
TO:0000371 - yield trait
TO:0000167 - cytokinin sensitivity
TO:0000276 - drought tolerance
TO:0000173 - ethylene sensitivity
TO:0000656 - root development trait
TO:0006001 - salt tolerance
 PO:0007518 - crown root emergence stage
PO:0000043 - crown root
Os01g0797600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g58420.1
HAK5 OsHAK5
FCO13
OsFCO13
 HIGH-AFFINITY POTASSIUM(K+) TRANSPORTER 5 High-affinity Potassium(K+) Transporter 5
Potassium transporter 5
high affinity K transporter 5
Functioning in Cesium Over-transport 13
 1 Tolerance and resistance - Stress tolerance
Biochemical character
Vegetative organ - Root
Tolerance and resistance - Disease resistance
 GO:0051607 - defense response to virus
GO:0055075 - potassium ion homeostasis
GO:0006813 - potassium ion transport
GO:0030955 - potassium ion binding
GO:0009651 - response to salt stress
GO:0016021 - integral to membrane
GO:0015079 - potassium ion transmembrane transporter activity
GO:0030001 - metal ion transport
GO:0048364 - root development
 TO:0000213 - rice grassy stunt 1 and 2 virus resistance
TO:0000656 - root development trait
TO:0006001 - salt tolerance
TO:0000605 - hydrogen peroxide content
 PO:0025034 - leaf
PO:0009005 - root
PO:0007520 - root development stage
Os01g0930400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g70490.1
DH1 OsDH1
OsLBD2-1
LBD2-1
OsLOB16
LOB16
OsLBD28
LBD28
LBD16
OsLBD16
 DEGENERATED HULL 1 degenerated hull1
lateral organ boundaries domain 2-1
 2 Vegetative organ - Root
Reproductive organ - Spikelet, flower, glume, awn
Other
 GO:0048830 - adventitious root development
GO:0005634 - nucleus
GO:0006355 - regulation of transcription, DNA-dependent
GO:0009755 - hormone-mediated signaling
GO:0009734 - auxin mediated signaling pathway
GO:0048437 - floral organ development
GO:0051302 - regulation of cell division
GO:0009736 - cytokinin mediated signaling
GO:0010311 - lateral root formation
 TO:0006022 - floral organ development trait
TO:0000656 - root development trait
TO:0002685 - crown root number
TO:0000240 - sterile lemma length
 PO:0000025 - root tip
PO:0025034 - leaf
PO:0009030 - carpel
PO:0000016 - lateral root primordium
PO:0009049 - inflorescence
PO:0007520 - root development stage
PO:0009010 - seed
PO:0009089 - endosperm
PO:0007504 - crown root primordium formation stage
PO:0007518 - crown root emergence stage
PO:0009009 - plant embryo
Os02g0820500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g57490.1
EL5 EL5.1
EL5.2
EL5.3
EL5.4
EL5.5
EL5.6
OsRING64
RING64
 ELICITOR 5 E3 ubiquitin-protein ligase EL5
RING-type E3 ubiquitin ligase 64
 2 Vegetative organ - Root
Biochemical character
Tolerance and resistance - Disease resistance
 GO:0005886 - plasma membrane
GO:0005515 - protein binding
GO:0008219 - cell death
GO:0008270 - zinc ion binding
GO:0009736 - cytokinin mediated signaling
GO:0016021 - integral to membrane
GO:0019941 - modification-dependent protein catabolic process
GO:0080033 - response to nitrite
GO:0051301 - cell division
GO:0006511 - ubiquitin-dependent protein catabolic process
GO:0016567 - protein ubiquitination
GO:0009620 - response to fungus
GO:0016874 - ligase activity
GO:0016020 - membrane
GO:0009609 - response to symbiotic bacterium
GO:0009617 - response to bacterium
GO:0046872 - metal ion binding
GO:0004842 - ubiquitin-protein ligase activity
GO:0048364 - root development
 Os02g0559800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g35329.1
RIM1 ONAC054
ONAC54
NAC54
ONAC054alpha
ONAC054beta
 RICE DWARF VIRUS MULTIPLICATION 1 NAC domain-containing protein 054
NAC domain-containing protein 54
 3 Vegetative organ - Root
Vegetative organ - Culm
Tolerance and resistance - Stress tolerance
Vegetative organ - Leaf
Tolerance and resistance - Disease resistance
 GO:0009738 - abscisic acid mediated signaling
GO:0005634 - nucleus
GO:0009737 - response to abscisic acid stimulus
GO:0016021 - integral to membrane
GO:0003700 - transcription factor activity
GO:0009723 - response to ethylene stimulus
GO:0010150 - leaf senescence
 TO:0000249 - leaf senescence
TO:0000180 - spikelet fertility
TO:0000173 - ethylene sensitivity
TO:0000148 - viral disease resistance
TO:0000316 - photosynthetic ability
TO:0000172 - jasmonic acid sensitivity
TO:0000447 - filled grain number
TO:0000207 - plant height
TO:0000152 - panicle number
TO:0000495 - chlorophyll content
TO:0000227 - root length
TO:0000326 - leaf color
TO:0000615 - abscisic acid sensitivity
TO:0002667 - abscisic acid content
TO:0000460 - light intensity sensitivity
 PO:0001054 - 4 leaf senescence stage
Os03g0119966 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g02800.1
DOF7 OsDof7
Dof7
OsDof-7
OsDOF11
DOF11
OsDof9
Dof9
 DNA BINDING WITH ONE FINGER 7 DNA BINDING WITH ONE FINGER 11
 2 Vegetative organ - Culm
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
Biochemical character
Vegetative organ - Root
 GO:0010067 - procambium histogenesis
GO:0009409 - response to cold
GO:0015770 - sucrose transport
GO:0003677 - DNA binding
GO:0042742 - defense response to bacterium
GO:0048364 - root development
GO:0005634 - nucleus
GO:0045893 - positive regulation of transcription, DNA-dependent
GO:0003700 - transcription factor activity
GO:0010087 - phloem or xylem histogenesis
 TO:0000227 - root length
TO:0000175 - bacterial blight disease resistance
TO:0000303 - cold tolerance
TO:0000207 - plant height
TO:0000346 - tiller number
TO:0006005 - fructose content
TO:0000300 - glucose content
TO:0006032 - panicle size
TO:0000328 - sucrose content
 PO:0020141 - stem node
PO:0000034 - vascular system
PO:0005421 - parenchyma
PO:0000071 - companion cell
PO:0005020 - vascular bundle
PO:0009005 - root
PO:0020110 - scutellum
Os02g0707200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g47810.1
SP3 OsDof15
Dof15
OsDof-15
DOF15
DLT3
OsDLT3
 SHORT PANICLE 3 Dof zinc factor 15
Dof transcription factor 15
DNA BINDING WITH ONE FINGER 15
Short Panicle 3
DWARF AND LESS TILLERS ON CHROMOSOME 3
 3 Vegetative organ - Root
Seed - Morphological traits - Grain shape
Character as QTL - Yield and productivity
Reproductive organ - Panicle, Mode of branching
Other
Vegetative organ - Culm
Vegetative organ - Leaf
Reproductive organ - Heading date
 GO:0048573 - photoperiodism, flowering
GO:0010082 - regulation of root meristem growth
GO:0009690 - cytokinin metabolic process
GO:0003677 - DNA binding
GO:0006355 - regulation of transcription, DNA-dependent
GO:0010229 - inflorescence development
GO:0045893 - positive regulation of transcription, DNA-dependent
GO:0005634 - nucleus
GO:0010081 - regulation of inflorescence meristem growth
GO:0009651 - response to salt stress
GO:0008284 - positive regulation of cell proliferation
GO:0009873 - ethylene mediated signaling pathway
GO:0048364 - root development
 TO:0002616 - flowering time
TO:0000050 - inflorescence branching
TO:0000456 - spikelet number
TO:0000396 - grain yield
TO:0006032 - panicle size
TO:0000132 - basal internode diameter
TO:0000656 - root development trait
TO:0000329 - tillering ability
TO:0000346 - tiller number
TO:0000137 - days to heading
TO:0000621 - inflorescence development trait
TO:0000547 - primary branch number
TO:0002692 - root meristem development
TO:0000373 - inflorescence anatomy and morphology trait
TO:0002758 - flag leaf lamina width
TO:0000397 - grain size
TO:0000455 - seed set percent
TO:0000734 - grain length
TO:0000557 - secondary branch number
TO:0000145 - internode length
TO:0000371 - yield trait
TO:0000040 - panicle length
TO:0006001 - salt tolerance
TO:0000592 - 1000-dehulled grain weight
TO:0000173 - ethylene sensitivity
TO:0000434 - root activity
TO:0000207 - plant height
TO:0000227 - root length
TO:0002660 - cytokinin content
 PO:0004709 - axillary bud
PO:0009049 - inflorescence
Os03g0764900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g55610.1
MKK1 OsMKK1
OsMEK2
MEK2
OsMAPKK1
MAPKK1
OsMAP2K2
MAP2K2
 MITOGEN-ACTIVATED PROTEIN KINASE KINASE 1 MAPK kinase 1
 6 Vegetative organ - Root
Biochemical character
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
 GO:0048364 - root development
GO:0009737 - response to abscisic acid stimulus
GO:0009734 - auxin mediated signaling pathway
GO:0009651 - response to salt stress
GO:0009733 - response to auxin stimulus
GO:0009738 - abscisic acid mediated signaling
GO:0050832 - defense response to fungus
GO:0042742 - defense response to bacterium
GO:0044242 - cellular lipid catabolic process
GO:0042542 - response to hydrogen peroxide
GO:0005737 - cytoplasm
GO:0043408 - regulation of MAPKKK cascade
GO:0006979 - response to oxidative stress
GO:0043068 - positive regulation of programmed cell death
GO:0009414 - response to water deprivation
GO:0009739 - response to gibberellin stimulus
GO:0009626 - plant-type hypersensitive response
GO:0070509 - calcium ion import
GO:0002679 - respiratory burst during defense response
GO:0000165 - MAPKKK cascade
 TO:0000276 - drought tolerance
TO:0000163 - auxin sensitivity
TO:0000074 - blast disease
TO:0006001 - salt tolerance
TO:0000516 - relative root length
TO:0000615 - abscisic acid sensitivity
TO:0002657 - oxidative stress
TO:0001034 - relative plant height
TO:0002672 - auxin content
TO:0000656 - root development trait
TO:0000175 - bacterial blight disease resistance
TO:0000605 - hydrogen peroxide content
TO:0000160 - UV light sensitivity
TO:0000166 - gibberellic acid sensitivity
 PO:0025034 - leaf
Os06g0147800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g05520.1
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/rice/oryzabase