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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
CENH3 OsCENH3
CenH3
 CENTROMERIC HISTONE 3C centromeric histone H3
centromere-specific histone H3
centromere-specific H3 histone
centromere-specific histone H3
 5 Character as QTL - Plant growth activity
Biochemical character
Reproductive organ - Pollination, fertilization, fertility
Reproductive organ - Heading date
 GO:0005515 - protein binding
GO:0006334 - nucleosome assembly
GO:0009567 - double fertilization forming a zygote and endosperm
GO:0051983 - regulation of chromosome segregation
GO:0051382 - kinetochore assembly
GO:0030527 - structural constituent of chromatin
GO:0000776 - kinetochore
GO:0048573 - photoperiodism, flowering
GO:0009793 - embryonic development ending in seed dormancy
GO:0009960 - endosperm development
GO:0007276 - gamete generation
GO:0000775 - chromosome, centromeric region
GO:0000786 - nucleosome
GO:0005634 - nucleus
GO:0046982 - protein heterodimerization activity
GO:0003677 - DNA binding
 TO:0002616 - flowering time
TO:0000207 - plant height
TO:0000421 - pollen fertility
TO:0000137 - days to heading
TO:0000040 - panicle length
TO:0002757 - flag leaf length
TO:0000455 - seed set percent
TO:0000620 - embryo development trait
 PO:0007631 - plant embryo stage
PO:0007633 - endosperm development stage
Os05g0489800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g41080.1
LOC_Os05g41080.2
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
MADS51 OsMADS51
OsMADS65
MADS65
qHd1
DLN36
OsDLN36
 MADS BOX GENE 51 MADS box gene51
DLN repressor 36
DLN motif protein 36
 1 Character as QTL - Yield and productivity
Tolerance and resistance - Stress tolerance
Character as QTL - Plant growth activity
Tolerance and resistance - Disease resistance
Other
Seed - Morphological traits
Reproductive organ - Heading date
 GO:0050832 - defense response to fungus
GO:0006355 - regulation of transcription, DNA-dependent
GO:0005634 - nucleus
GO:0003700 - transcription factor activity
GO:0009409 - response to cold
GO:0009408 - response to heat
GO:0006350 - transcription
GO:0043565 - sequence-specific DNA binding
 TO:0002616 - flowering time
TO:0000432 - temperature response trait
TO:0000259 - heat tolerance
TO:0000137 - days to heading
TO:0000303 - cold tolerance
TO:0000074 - blast disease
TO:0000357 - growth and development trait
TO:0000329 - tillering ability
TO:0000590 - grain weight
TO:0000396 - grain yield
TO:0000455 - seed set percent
TO:0000152 - panicle number
TO:0000449 - grain yield per plant
 Os01g0922800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g69850.1
MIR156B miR156b
OsmiR156b
osmiR156b
osa-miR156b
osa-MIR156b
miR156b*osa-miR156b-3p osa-miR156b-5p
 MICRORNA156B micro RNA 156b
microRNA156b
osa-miRNA156b
 1 Character as QTL - Plant growth activity
Other
Tolerance and resistance - Disease resistance
 GO:0050832 - defense response to fungus
GO:0006379 - mRNA cleavage
GO:0016442 - RNA-induced silencing complex
GO:0035068 - micro-ribonucleoprotein complex
GO:0035195 - gene silencing by miRNA
GO:0010050 - vegetative phase change
GO:0032350 - regulation of hormone metabolic process
 TO:0000074 - blast disease
TO:0000357 - growth and development trait
TO:0000476 - growth hormone content
 PO:0009049 - inflorescence
PO:0000009 - cultured plant callus
PO:0009005 - root
PO:0009025 - vascular leaf
-
ESL4 CDPK12
OsCDPK12
OsCPK12
CPK12
OsESL4
 EARLY SENESCENCE LEAF 4 calcium-dependent protein kinase
Calcium-dependent protein kinase 12
Early senescence leaf 4
 4 Tolerance and resistance
Biochemical character
Character as QTL - Plant growth activity
Character as QTL - Yield and productivity
Tolerance and resistance - Stress tolerance
Vegetative organ - Leaf
 GO:0031000 - response to caffeine
GO:0005524 - ATP binding
GO:0016020 - membrane
GO:0006979 - response to oxidative stress
GO:0009414 - response to water deprivation
GO:0004674 - protein serine/threonine kinase activity
GO:0005634 - nucleus
GO:0005509 - calcium ion binding
GO:0005737 - cytoplasm
GO:0005886 - plasma membrane
GO:0009627 - systemic acquired resistance
GO:0009697 - salicylic acid biosynthetic process
GO:0006807 - nitrogen compound metabolic process
GO:0010150 - leaf senescence
GO:0010310 - regulation of hydrogen peroxide metabolic process
GO:0018105 - peptidyl-serine phosphorylation
 TO:0000371 - yield trait
TO:0000276 - drought tolerance
TO:0000271 - inflorescence length
TO:0000495 - chlorophyll content
TO:0000455 - seed set percent
TO:0002657 - oxidative stress
TO:0000605 - hydrogen peroxide content
TO:0000249 - leaf senescence
TO:0000440 - grain number per plant
 PO:0025034 - leaf
PO:0009047 - stem
PO:0020104 - leaf sheath
PO:0007633 - endosperm development stage
Os04g0560600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os04g47300.1
CATA CATA1
Cat A1*
OSCAT-A
Cat2
CatA1
CAT-A
OsCatA
OsCAT
CAT
catA
OSCATA
OsCATc
OsCATA
OsCAT1A
CAT1
OsCAT1
OsCATC
OsCAT2
 CATALASE A CATALASE A
Catalase-2*
Catalase-Al (cDNA clone)
Catalase isozyme A
 2 Tolerance and resistance - Disease resistance
Biochemical character
Tolerance and resistance - Stress tolerance
Character as QTL - Yield and productivity
Character as QTL - Plant growth activity
Character as QTL - Germination
 GO:0009737 - response to abscisic acid stimulus
GO:0009845 - seed germination
GO:0009725 - response to hormone stimulus
GO:0009739 - response to gibberellin stimulus
GO:0009609 - response to symbiotic bacterium
GO:0010446 - response to alkalinity
GO:0043067 - regulation of programmed cell death
GO:0005634 - nucleus
GO:0010332 - response to gamma radiation
GO:0005737 - cytoplasm
GO:0051775 - response to redox state
GO:0009408 - response to heat
GO:0006979 - response to oxidative stress
GO:0004096 - catalase activity
GO:0042744 - hydrogen peroxide catabolic process
GO:0055114 - oxidation reduction
GO:0042742 - defense response to bacterium
GO:0009414 - response to water deprivation
GO:0010372 - positive regulation of gibberellin biosynthetic process
GO:0009409 - response to cold
GO:0005777 - peroxisome
GO:0005829 - cytosol
GO:0006801 - superoxide metabolic process
GO:0042542 - response to hydrogen peroxide
GO:0009738 - abscisic acid mediated signaling
GO:0009514 - glyoxysome
GO:0020037 - heme binding
GO:0009651 - response to salt stress
GO:0009751 - response to salicylic acid stimulus
GO:0010029 - regulation of seed germination
 TO:0000031 - silicon sensitivity
TO:0000175 - bacterial blight disease resistance
TO:0000605 - hydrogen peroxide content
TO:0000481 - alkali sensitivity
TO:0000207 - plant height
TO:0000136 - relative water content
TO:0001016 - relative chlorophyll content
TO:0000152 - panicle number
TO:0000455 - seed set percent
TO:0000166 - gibberellic acid sensitivity
TO:0000615 - abscisic acid sensitivity
TO:0000401 - plant growth hormone sensitivity
TO:0000303 - cold tolerance
TO:0006001 - salt tolerance
TO:0000276 - drought tolerance
TO:0000382 - 1000-seed weight
TO:0002657 - oxidative stress
TO:0000326 - leaf color
TO:0000259 - heat tolerance
 PO:0007022 - seed imbibition stage
PO:0007057 - 0 seed germination stage
PO:0025034 - leaf
PO:0009010 - seed
PO:0009066 - anther
PO:0009047 - stem
Os02g0115700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g02400.2
LOC_Os02g02400.3
LOC_Os02g02400.1
NOE1 CATC
OsCat
OsCatC
OsCATC
OsNOE1
noe1
catC
OsCATC
CAT3
OsCAT3
LLM9428
OsLLM9428
 NITRIC OXIDE EXCESS 1 catalase C
catalase isozyme C
nitric oxide excess1
large lesion mimic mutant 9428
 3 Character as QTL - Yield and productivity
Seed - Physiological traits - Shattering
Vegetative organ - Culm
Tolerance and resistance - Lesion mimic
Tolerance and resistance - Stress tolerance
Character as QTL - Plant growth activity
Tolerance and resistance - Disease resistance
Vegetative organ - Leaf
Biochemical character
 GO:0009725 - response to hormone stimulus
GO:0042744 - hydrogen peroxide catabolic process
GO:0005982 - starch metabolic process
GO:0050832 - defense response to fungus
GO:0009414 - response to water deprivation
GO:0009642 - response to light intensity
GO:0010939 - regulation of necrotic cell death
GO:0033484 - nitric oxide homeostasis
GO:0031348 - negative regulation of defense response
GO:0009416 - response to light stimulus
GO:0005634 - nucleus
GO:0043067 - regulation of programmed cell death
GO:0004096 - catalase activity
GO:0006979 - response to oxidative stress
GO:0045454 - cell redox homeostasis
GO:0020037 - heme binding
GO:0042742 - defense response to bacterium
GO:0009409 - response to cold
GO:0010229 - inflorescence development
GO:0010150 - leaf senescence
GO:0050777 - negative regulation of immune response
GO:0009404 - toxin metabolic process
GO:0009651 - response to salt stress
GO:0005739 - mitochondrion
GO:0006801 - superoxide metabolic process
GO:0005777 - peroxisome
GO:0042548 - regulation of photosynthesis, light reaction
GO:0009737 - response to abscisic acid stimulus
GO:0009408 - response to heat
 TO:0000455 - seed set percent
TO:0000259 - heat tolerance
TO:0000276 - drought tolerance
TO:0000063 - mimic response
TO:0000357 - growth and development trait
TO:0000175 - bacterial blight disease resistance
TO:0000074 - blast disease
TO:0000249 - leaf senescence
TO:0000615 - abscisic acid sensitivity
TO:0000401 - plant growth hormone sensitivity
TO:0002657 - oxidative stress
TO:0000605 - hydrogen peroxide content
TO:0002662 - leaf rolling tolerance
TO:0000152 - panicle number
TO:0000621 - inflorescence development trait
TO:0000326 - leaf color
TO:0000447 - filled grain number
TO:0000346 - tiller number
TO:0000207 - plant height
TO:0000382 - 1000-seed weight
TO:0000460 - light intensity sensitivity
TO:0000019 - seedling height
TO:0002637 - leaf size
TO:0000473 - grain shattering
TO:0000075 - light sensitivity
TO:0006001 - salt tolerance
TO:0000303 - cold tolerance
 PO:0020104 - leaf sheath
PO:0001083 - inflorescence development stage
PO:0001054 - 4 leaf senescence stage
PO:0009047 - stem
PO:0025034 - leaf
Os03g0131200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g03910.1
GHD7 Ghd2
Ghd7
OsGhd7
OsCCT26
OsCMF8
OsI
Ghd7/Hd4
Hd4
EH7-1/Hd4
Ghd7-0a
EH7-1
EH7/Ghd7
EH7
OsEH7
GLW7.1
OsGLW7.1
 HEADING DATE 7 heading date 7
"Grain number
plant height
and heading date7"
"GRAIN NUMBER
PLANT HEIGHT AND HEADING DATE 7"
CCT domain-containing gene 26
CCT (CO, CO-LIKE and TOC1) domain protein 26
CCT domain protein 26
CCT MOTIF FAMILY (CMF) gene 8
Early heading 7
"Grain Length
Width and Weight 7.1"
Grain height date 7
 7 Seed - Physiological traits - Taste
Seed - Physiological traits - Storage substances
Reproductive organ - Heading date
Character as QTL - Plant growth activity
Character as QTL - Yield and productivity
Vegetative organ - Culm
Seed - Physiological traits
Heterochrony
Reproductive organ - Spikelet, flower, glume, awn
Character as QTL - Grain quality
Seed - Morphological traits - Grain shape
 GO:0009648 - photoperiodism
GO:0030307 - positive regulation of cell growth
GO:0006521 - regulation of cellular amino acid metabolic process
GO:0008643 - carbohydrate transport
GO:0015770 - sucrose transport
GO:0010109 - regulation of photosynthesis
GO:0006808 - regulation of nitrogen utilization
GO:0010372 - positive regulation of gibberellin biosynthetic process
GO:0009740 - gibberellic acid mediated signaling
GO:0005985 - sucrose metabolic process
GO:0010229 - inflorescence development
GO:0051171 - regulation of nitrogen compound metabolic process
GO:0009744 - response to sucrose stimulus
GO:0048573 - photoperiodism, flowering
GO:0009416 - response to light stimulus
GO:0048579 - negative regulation of long-day photoperiodism, flowering
GO:0009745 - sucrose mediated signaling
GO:0007623 - circadian rhythm
GO:0006109 - regulation of carbohydrate metabolic process
GO:0042128 - nitrate assimilation
GO:0045892 - negative regulation of transcription, DNA-dependent
GO:0045848 - positive regulation of nitrogen utilization
GO:0051781 - positive regulation of cell division
 TO:0000357 - growth and development trait
TO:0000019 - seedling height
TO:0000456 - spikelet number
TO:0000696 - starch content
TO:0000447 - filled grain number
TO:0000107 - endosperm storage protein-1 content
TO:0000710 - globulin protein content
TO:0000590 - grain weight
TO:0000229 - photoperiod sensitivity
TO:0002680 - albumin content
TO:0000109 - endosperm storage protein-2 content
TO:0000621 - inflorescence development trait
TO:0002653 - endosperm storage protein content
TO:0000382 - 1000-seed weight
TO:0000152 - panicle number
TO:0000011 - nitrogen sensitivity
TO:0000734 - grain length
TO:0000449 - grain yield per plant
TO:0000196 - amylose content
TO:0000211 - gel consistency
TO:0000469 - days to maturity
TO:0000207 - plant height
TO:0000137 - days to heading
TO:0002616 - flowering time
TO:0002759 - grain number
TO:0000557 - secondary branch number
TO:0000352 - plant dry weight
TO:0000397 - grain size
TO:0000396 - grain yield
TO:0000162 - seed quality
TO:0000266 - chalky endosperm
TO:0002675 - gibberellic acid content
TO:0000050 - inflorescence branching
 PO:0001083 - inflorescence development stage
Os07g0261200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g15770.1
HK5 OHK3
HK
OsHK5
Crl3
Ohk3
OsHK2
 HISTIDINE KINASE 5 histidine kinase 5
His kinase 5
 10 Reproductive organ - Heading date
Reproductive organ - Pollination, fertilization, fertility
Biochemical character
Character as QTL - Plant growth activity
 GO:0000156 - two-component response regulator activity
GO:0048573 - photoperiodism, flowering
GO:0005524 - ATP binding
GO:0006355 - regulation of transcription, DNA-dependent
GO:0016020 - membrane
GO:0018106 - peptidyl-histidine phosphorylation
GO:0009909 - regulation of flower development
GO:0004673 - protein histidine kinase activity
GO:0048831 - regulation of shoot development
GO:0009884 - cytokinin receptor activity
GO:0009735 - response to cytokinin stimulus
GO:0048364 - root development
GO:0009736 - cytokinin mediated signaling
GO:0000155 - two-component sensor activity
 TO:0000167 - cytokinin sensitivity
TO:0000137 - days to heading
TO:0002616 - flowering time
TO:0000152 - panicle number
TO:0000370 - leaf width
TO:0000485 - sterility related trait
TO:0000357 - growth and development trait
TO:0000654 - shoot development trait
TO:0000622 - flower development trait
TO:0000656 - root development trait
TO:0000373 - inflorescence anatomy and morphology trait
 Os10g0362300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os10g21810.1
LOC_Os10g21810.2
PAL1 HK4
OHK4
HK
OsHK4
Crl1b
Ohk4
OHK4/OsHK4
OsPAL1
 PANICLE LENGTH 1 histidine kinase 4
His kinase 4
panicle length1
 3 Reproductive organ - Inflorescence
Character as QTL - Plant growth activity
Reproductive organ - panicle
Biochemical character
 GO:0010229 - inflorescence development
GO:0009884 - cytokinin receptor activity
GO:0009735 - response to cytokinin stimulus
GO:0005886 - plasma membrane
GO:0000155 - two-component sensor activity
GO:0009823 - cytokinin catabolic process
GO:0080037 - negative regulation of cytokinin mediated signaling
GO:0010075 - regulation of meristem growth
GO:0009691 - cytokinin biosynthetic process
GO:0000156 - two-component response regulator activity
GO:0004673 - protein histidine kinase activity
GO:0005524 - ATP binding
GO:0006355 - regulation of transcription, DNA-dependent
GO:0010081 - regulation of inflorescence meristem growth
GO:0016020 - membrane
GO:0018106 - peptidyl-histidine phosphorylation
GO:0005783 - endoplasmic reticulum
GO:0009736 - cytokinin mediated signaling
 TO:0000207 - plant height
TO:0006032 - panicle size
TO:0000346 - tiller number
TO:0002757 - flag leaf length
TO:0002758 - flag leaf lamina width
TO:0000557 - secondary branch number
TO:0000132 - basal internode diameter
TO:0002660 - cytokinin content
TO:0000096 - ratooning ability
TO:0000547 - primary branch number
TO:0000040 - panicle length
TO:0000167 - cytokinin sensitivity
TO:0000621 - inflorescence development trait
TO:0006031 - inflorescence size
TO:0000447 - filled grain number
 PO:0001083 - inflorescence development stage
PO:0004709 - axillary bud
Os03g0717700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g50860.1
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
SPL17 OsCAD1
CAD1
 SPOTTED LEAF 17 spotted leaf 17
CONSTITUTIVE ACTIVE DEFENSE 1
 1 Character as QTL - Plant growth activity
Tolerance and resistance - Lesion mimic
Tolerance and resistance - Disease resistance
Character as QTL - Yield and productivity
 GO:0016020 - membrane
GO:0005829 - cytosol
GO:0009626 - plant-type hypersensitive response
GO:0009416 - response to light stimulus
GO:0031347 - regulation of defense response
GO:0009863 - salicylic acid mediated signaling pathway
GO:0050832 - defense response to fungus
GO:0009867 - jasmonic acid mediated signaling pathway
GO:0042742 - defense response to bacterium
GO:0006952 - defense response
GO:0005634 - nucleus
GO:0043067 - regulation of programmed cell death
 TO:0000357 - growth and development trait
TO:0002668 - jasmonic acid content
TO:0000605 - hydrogen peroxide content
TO:0000207 - plant height
TO:0000382 - 1000-seed weight
TO:0000063 - mimic response
TO:0000075 - light sensitivity
TO:0000455 - seed set percent
TO:0000175 - bacterial blight disease resistance
TO:0000074 - blast disease
 PO:0025034 - leaf
Os01g0748900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g54510.1
RF2B RF2b
OsRF2B
OsbZIP30
bZIP30
 bZIP TRANSCRIPTION FACTOR RF2B Transcription factor RF2b
bZIP transcription factor 30
 3 Character as QTL - Yield and productivity
Character as QTL - Plant growth activity
Other
 GO:0042128 - nitrate assimilation
GO:0046983 - protein dimerization activity
GO:0003700 - transcription factor activity
GO:0005634 - nucleus
GO:0006350 - transcription
GO:0006355 - regulation of transcription, DNA-dependent
GO:0043565 - sequence-specific DNA binding
GO:0045847 - negative regulation of nitrogen utilization
GO:0010167 - response to nitrate
GO:0045892 - negative regulation of transcription, DNA-dependent
 TO:0000449 - grain yield per plant
TO:0000040 - panicle length
TO:0000011 - nitrogen sensitivity
TO:0000382 - 1000-seed weight
TO:0000396 - grain yield
TO:0000397 - grain size
TO:0000207 - plant height
TO:0000357 - growth and development trait
TO:0000734 - grain length
TO:0000402 - grain width
 PO:0009051 - spikelet
PO:0009005 - root
Os03g0336200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g21800.1
LOC_Os03g21800.2
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
HLM1 NRAMP4
OsNRAMP4
Nrat1
Nramp6
OsNRAT1
NRAT1
FCO5
 HR-LIKE LESION MIMIC 1 BACTERIOCIDE EFFECT 4
Nramp aluminum transporter 1
Functioning in Cesium Over-transport 5
HR-like lesion mimic 1
 2 Tolerance and resistance - Disease resistance
Biochemical character
Tolerance and resistance - Stress tolerance
Character as QTL - Plant growth activity
Tolerance and resistance - Lesion mimic
 GO:0016021 - integral to membrane
GO:0015083 - aluminum ion transmembrane transporter activity
GO:0052322 - positive regulation of phytoalexin biosynthetic process
GO:0043068 - positive regulation of programmed cell death
GO:0005886 - plasma membrane
GO:0010044 - response to aluminum ion
GO:0043410 - positive regulation of MAPKKK cascade
GO:0042742 - defense response to bacterium
GO:0005737 - cytoplasm
GO:0030001 - metal ion transport
 TO:0002758 - flag leaf lamina width
TO:0000063 - mimic response
TO:0000175 - bacterial blight disease resistance
TO:0000605 - hydrogen peroxide content
TO:0000357 - growth and development trait
TO:0000207 - plant height
TO:0002757 - flag leaf length
TO:0000354 - aluminum sensitivity
TO:0000040 - panicle length
TO:0000734 - grain length
TO:0000455 - seed set percent
TO:0000447 - filled grain number
TO:0000382 - 1000-seed weight
TO:0000516 - relative root length
 PO:0025034 - leaf
Os02g0131800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g03900.1
HAP2H OsHAP2H
NF-YA
CBF-B
NF-YA3
OsNF-YA3
NFYA3
 HAP2 SUBUNIT OF CCAAT-BOX BINDING COMPLEX NUCLEAR FACTOR-Y subunit A3
NUCLEAR FACTOR-Y subunit NF-YA3
NF-YA transcription factor 3
NF-YA subunit 3
NF-YA family 3
 3 Other
Tolerance and resistance - Stress tolerance
Character as QTL - Plant growth activity
Vegetative organ - Leaf
Tolerance and resistance - Disease resistance
Vegetative organ - Culm
 GO:0010119 - regulation of stomatal movement
GO:0009867 - jasmonic acid mediated signaling pathway
GO:0043565 - sequence-specific DNA binding
GO:0009737 - response to abscisic acid stimulus
GO:0046345 - abscisic acid catabolic process
GO:0006350 - transcription
GO:0006970 - response to osmotic stress
GO:0009651 - response to salt stress
GO:0009937 - regulation of gibberellic acid mediated signaling
GO:0047484 - regulation of response to osmotic stress
GO:0010372 - positive regulation of gibberellin biosynthetic process
GO:0080006 - internode patterning
GO:0009753 - response to jasmonic acid stimulus
GO:0005634 - nucleus
GO:0006355 - regulation of transcription, DNA-dependent
GO:0010728 - regulation of hydrogen peroxide biosynthetic process
GO:0010371 - regulation of gibberellin biosynthetic process
GO:0009740 - gibberellic acid mediated signaling
GO:0009414 - response to water deprivation
GO:0003700 - transcription factor activity
GO:0051607 - defense response to virus
GO:0030104 - water homeostasis
GO:0051512 - positive regulation of unidimensional cell growth
GO:0090359 - negative regulation of abscisic acid biosynthetic process
GO:0009788 - negative regulation of abscisic acid mediated signaling
GO:0009738 - abscisic acid mediated signaling
 TO:0000357 - growth and development trait
TO:0000095 - osmotic response sensitivity
TO:0006001 - salt tolerance
TO:0000276 - drought tolerance
TO:0000615 - abscisic acid sensitivity
TO:0002667 - abscisic acid content
TO:0000145 - internode length
TO:0000136 - relative water content
TO:0000520 - stomatal closure rate
TO:0000148 - viral disease resistance
TO:0000207 - plant height
TO:0002662 - leaf rolling tolerance
TO:0000605 - hydrogen peroxide content
TO:0006002 - proline content
TO:0002675 - gibberellic acid content
TO:0000172 - jasmonic acid sensitivity
TO:0000019 - seedling height
 Os03g0647600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g44540.1
HAP3D OsHAP3D
OsEnS-83
OsNF-YB9
NF-YB9
NFYB9
OsLEC1A
LEC1A
 HAP3D SUBUNIT OF CCAAT-BOX BINDING COMPLEX HAP3 subunit D
LEC1-type 3 subunit protein-D
endosperm-specific gene 83
NUCLEAR FACTOR-Y subunit B9
NUCLEAR FACTOR-Y subunit NF-YB9
HAP3 SUBUNIT D
NF-YB subunit 9
NF-YB family 9
 6 Tolerance and resistance - Stress tolerance
Seed - Morphological traits - Endosperm
Reproductive organ - Pollination, fertilization, fertility - Sterility
Seed - Physiological traits - Storage substances
Other
Seed - Morphological traits - Grain shape
Character as QTL - Plant growth activity
Reproductive organ - Spikelet, flower, glume, awn
Character as QTL - Grain quality
Reproductive organ - Heading date
 GO:0005634 - nucleus
GO:0043565 - sequence-specific DNA binding
GO:0048316 - seed development
GO:0006355 - regulation of transcription, DNA-dependent
GO:0009790 - embryonic development
GO:0048579 - negative regulation of long-day photoperiodism, flowering
GO:0006350 - transcription
GO:0010581 - regulation of starch biosynthetic process
GO:0005737 - cytoplasm
GO:0042127 - regulation of cell proliferation
GO:0009845 - seed germination
 TO:0000734 - grain length
TO:0000399 - grain thickness
TO:0000391 - seed size
TO:0000266 - chalky endosperm
TO:0000304 - seed thickness
TO:0000149 - seed width
TO:0000146 - seed length
TO:0000137 - days to heading
TO:0000421 - pollen fertility
TO:0000696 - starch content
TO:0000485 - sterility related trait
TO:0000207 - plant height
TO:0000346 - tiller number
TO:0000639 - seed fertility
TO:0000382 - 1000-seed weight
TO:0000162 - seed quality
TO:0000222 - head rice
TO:0000064 - embryo related trait
TO:0000575 - endosperm related trait
TO:0000487 - endosperm color
TO:0020033 - glume length
TO:0000653 - seed development trait
TO:0000276 - drought tolerance
TO:0000211 - gel consistency
TO:0000196 - amylose content
 PO:0020094 - plant egg cell
PO:0000003 - whole plant
PO:0009009 - plant embryo
PO:0009089 - endosperm
PO:0009010 - seed
PO:0001170 - seed development stage
Os06g0285200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g17480.1
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
GAMYBL2 OsGAMYBL2
Os2R_MYB40
2R_MYB40
MYB2-45
OsMYB2-45
 GAMYB-LIKE 2 R2R3-MYB Transcription Factor 40
R2R3-MYB transcription factor 2-45
 3 Other
Character as QTL - Plant growth activity
Seed - Morphological traits - Grain shape
Tolerance and resistance - Insect resistance
Character as QTL - Yield and productivity
 GO:0009908 - flower development
GO:0009742 - brassinosteroid mediated signaling
GO:0005634 - nucleus
GO:0002213 - defense response to insect
GO:0010476 - gibberellin-mediated signaling
 TO:0000397 - grain size
TO:0000357 - growth and development trait
TO:0000424 - brown planthopper resistance
 Os03g0578900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g38210.1
EP2 ep2
EP2/DEP2/SRS1
SRS1/DEP2
DEP2
SRS1
OsSRS1
CL7(t)
OsRELA
RELA
SUG1
OsSUG1
 ERECT PANICLE 2 erect panical 2
Erect panicle2
erect panicle2-1
erect panicle2-2
dense and erect panicle 2
small and round seed 1
cleistogamy 7
cleistogamy gene on chromosome 7
regulator of leaf angle
suppressor of GS2AA 1
 7 Tolerance and resistance - Disease resistance
Vegetative organ - Leaf
Reproductive organ - Panicle, Mode of branching
Seed - Morphological traits - Grain shape
Character as QTL - Yield and productivity
Character as QTL - Plant growth activity
 GO:0010422 - regulation of brassinosteroid biosynthetic process
GO:0010371 - regulation of gibberellin biosynthetic process
GO:0010200 - response to chitin
GO:0009742 - brassinosteroid mediated signaling
GO:0050832 - defense response to fungus
GO:0002221 - pattern recognition receptor signaling pathway
GO:0005634 - nucleus
GO:0002679 - respiratory burst during defense response
GO:0032491 - detection of molecule of fungal origin
GO:0001558 - regulation of cell growth
GO:0009937 - regulation of gibberellic acid mediated signaling
GO:0050777 - negative regulation of immune response
GO:0005737 - cytoplasm
GO:0009741 - response to brassinosteroid stimulus
GO:0009740 - gibberellic acid mediated signaling
GO:0009739 - response to gibberellin stimulus
GO:0006355 - regulation of transcription, DNA-dependent
 TO:0000339 - stem thickness
TO:0000402 - grain width
TO:0000040 - panicle length
TO:0000557 - secondary branch number
TO:0000079 - lemma and palea anatomy and morphology trait
TO:0002637 - leaf size
TO:0000166 - gibberellic acid sensitivity
TO:0000397 - grain size
TO:0000399 - grain thickness
TO:0000074 - blast disease
TO:0000180 - spikelet fertility
TO:0000342 - panicle axis angle
TO:0000382 - 1000-seed weight
TO:0002730 - grain shape
TO:0000206 - leaf angle
TO:0000590 - grain weight
TO:0002677 - brassinosteroid sensitivity
TO:0002759 - grain number
TO:0000050 - inflorescence branching
TO:0002688 - leaf lamina joint bending
TO:0000734 - grain length
TO:0000207 - plant height
TO:0000472 - vascular bundle number
TO:0000051 - stem strength
 PO:0009037 - lemma
PO:0001083 - inflorescence development stage
PO:0025034 - leaf
PO:0009049 - inflorescence
PO:0009038 - palea
PO:0009005 - root
PO:0020104 - leaf sheath
PO:0005020 - vascular bundle
PO:0009047 - stem
PO:0009082 - spikelet floret
Os07g0616000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g42410.1
AOC OsAOC
AOC1
OsAOC1
HB
CPM2
OsAOC4
AOC4
 ALLENE OXIDE CYCLASE allene oxide cyclase
coleoptile photomorphogenesis 2
hebiba
hebibaAOC
 3 Tolerance and resistance - Disease resistance
Biochemical character
Tolerance and resistance - Stress tolerance
Reproductive organ - Pollination, fertilization, fertility
Tolerance and resistance - Insect resistance
Tolerance and resistance
Character as QTL - Plant growth activity
Vegetative organ - Leaf
 GO:0080141 - regulation of jasmonic acid biosynthetic process
GO:0009408 - response to heat
GO:0009409 - response to cold
GO:0009867 - jasmonic acid mediated signaling pathway
GO:0016853 - isomerase activity
GO:0050832 - defense response to fungus
GO:0009611 - response to wounding
GO:0009695 - jasmonic acid biosynthetic process
GO:0009941 - chloroplast envelope
GO:0005886 - plasma membrane
GO:0009414 - response to water deprivation
GO:0009620 - response to fungus
GO:0009753 - response to jasmonic acid stimulus
GO:0009269 - response to desiccation
GO:0002215 - defense response to nematode
GO:0009617 - response to bacterium
GO:0010319 - stromule
GO:0009570 - chloroplast stroma
GO:0009535 - chloroplast thylakoid membrane
GO:0009651 - response to salt stress
GO:0046423 - allene-oxide cyclase activity
GO:0002213 - defense response to insect
 TO:0000544 - mesocotyl length
TO:0000403 - leaf-folder resistance
TO:0001007 - coleoptile length
TO:0000227 - root length
TO:0000074 - blast disease
TO:0000357 - growth and development trait
TO:0000384 - nematode damage resistance
TO:0000172 - jasmonic acid sensitivity
TO:0000485 - sterility related trait
TO:0002668 - jasmonic acid content
TO:0006001 - salt tolerance
TO:0000129 - false smut disease resistance
TO:0000424 - brown planthopper resistance
TO:0000290 - flavonoid content
TO:0000259 - heat tolerance
TO:0000276 - drought tolerance
TO:0000112 - disease resistance
TO:0000207 - plant height
 PO:0009051 - spikelet
Os03g0438100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g32314.1
BU1 ILI4
OsILI4
OsBU1
BU1/ILI4
OsbHLH172
bHLH172
 BRASSINOSTEROID UPREGULATED 1 BRASSINOSTEROID UPREGULATED1
Increased Leaf Inclination4
BR upregulated 1
basic helix-loop-helix protein 172
 6 Other
Reproductive organ - Pollination, fertilization, fertility
Character as QTL - Yield and productivity
Vegetative organ - Culm
Seed - Morphological traits - Grain shape
Seed - Morphological traits
Character as QTL - Plant growth activity
Vegetative organ - Leaf
 GO:0005737 - cytoplasm
GO:0009753 - response to jasmonic acid stimulus
GO:0009742 - brassinosteroid mediated signaling
GO:0046983 - protein dimerization activity
GO:0040008 - regulation of growth
GO:0006351 - transcription, DNA-dependent
GO:0005634 - nucleus
GO:0009741 - response to brassinosteroid stimulus
GO:0009723 - response to ethylene stimulus
GO:0006355 - regulation of transcription, DNA-dependent
 TO:0000397 - grain size
TO:0002677 - brassinosteroid sensitivity
TO:0002688 - leaf lamina joint bending
TO:0000173 - ethylene sensitivity
TO:0000357 - growth and development trait
TO:0000485 - sterility related trait
TO:0000361 - stem anatomy and morphology trait
TO:0000207 - plant height
TO:0000145 - internode length
TO:0000402 - grain width
TO:0000590 - grain weight
TO:0000492 - leaf shape
TO:0000326 - leaf color
TO:0000172 - jasmonic acid sensitivity
TO:0000206 - leaf angle
TO:0000734 - grain length
 PO:0005052 - plant callus
Os06g0226500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g12210.1
RDD4 OsDof12
Dof12
OsDof-12
OsCDF1
OsCDF1/OsDOF12
OsDOF12
CDF1
DOF12
OsDof11
Dof11
 RICE DOF DAILY FLUCTUATIONS 4 CYCLING DOF FACTOR 1
Dof zinc factor 12
Dof transcription factor 12
DNA binding with one finger 12
 3 Character as QTL - Plant growth activity
Seed
Other
Tolerance and resistance - Stress tolerance
 GO:0010037 - response to carbon dioxide
GO:0051365 - cellular response to potassium ion starvation
GO:0030104 - water homeostasis
GO:0005634 - nucleus
GO:0006355 - regulation of transcription, DNA-dependent
GO:0008270 - zinc ion binding
GO:0003677 - DNA binding
GO:0042542 - response to hydrogen peroxide
GO:0006979 - response to oxidative stress
GO:0009699 - phenylpropanoid biosynthetic process
GO:0009266 - response to temperature stimulus
GO:0042594 - response to starvation
GO:0009414 - response to water deprivation
GO:0009646 - response to absence of light
GO:0010378 - temperature compensation of the circadian clock
GO:0007623 - circadian rhythm
 TO:0006032 - panicle size
TO:0000276 - drought tolerance
TO:0000432 - temperature response trait
TO:0000357 - growth and development trait
TO:0000568 - shoot weight
TO:0000014 - panicle weight
TO:0000040 - panicle length
TO:0000207 - plant height
TO:0000241 - leaf number
TO:0000609 - potassium content
TO:0000495 - chlorophyll content
TO:0000316 - photosynthetic ability
TO:0000029 - chlorine sensitivity
TO:0000008 - potassium sensitivity
TO:0000465 - mineral and ion content related trait
TO:0000605 - hydrogen peroxide content
TO:0002657 - oxidative stress
TO:0000522 - stomatal conductance
TO:0002662 - leaf rolling tolerance
TO:0000136 - relative water content
TO:0000460 - light intensity sensitivity
 PO:0020104 - leaf sheath
PO:0005020 - vascular bundle
PO:0020103 - flag leaf
PO:0025034 - leaf
Os03g0169600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g07360.1
CLF OsSET24
SET24
OsSDG711
SDG711
EZ1
OsEZ1
OsCLF
OsPcG1
PcG1
 CURLY LEAF SET protein 24
polycomb protein EZ1
SET DOMAIN GROUP 711
Polycomb group protein 1
 6 Reproductive organ - panicle
Character as QTL - Plant growth activity
Vegetative organ - Leaf
Seed - Physiological traits - Storage substances
Reproductive organ - Spikelet, flower, glume, awn
Biochemical character
Reproductive organ - Heading date
Tolerance and resistance - Stress tolerance
Other
Seed - Morphological traits
Seed - Morphological traits - Endosperm
Seed
 GO:0001558 - regulation of cell growth
GO:0006349 - genetic imprinting
GO:0031519 - PcG protein complex
GO:0046976 - histone methyltransferase activity (H3-K27 specific)
GO:0005634 - nucleus
GO:0042127 - regulation of cell proliferation
GO:0009823 - cytokinin catabolic process
GO:0048316 - seed development
GO:0034968 - histone lysine methylation
GO:0003700 - transcription factor activity
GO:0006306 - DNA methylation
GO:0010048 - vernalization response
GO:0009908 - flower development
GO:0048586 - regulation of long-day photoperiodism, flowering
GO:0009651 - response to salt stress
GO:0016571 - histone methylation
GO:0031047 - gene silencing by RNA
GO:0045857 - negative regulation of molecular function, epigenetic
GO:0048574 - long-day photoperiodism, flowering
GO:0051567 - histone H3-K9 methylation
GO:0003727 - single-stranded RNA binding
GO:0010229 - inflorescence development
GO:0009690 - cytokinin metabolic process
GO:0003677 - DNA binding
GO:0009691 - cytokinin biosynthetic process
GO:0040029 - regulation of gene expression, epigenetic
GO:0009960 - endosperm development
GO:0009294 - DNA mediated transformation
GO:0009965 - leaf morphogenesis
GO:0010228 - vegetative to reproductive phase transition
GO:0005982 - starch metabolic process
GO:0040014 - regulation of multicellular organism growth
 TO:0006032 - panicle size
TO:0002637 - leaf size
TO:0000558 - small vascular bundle number
TO:0002758 - flag leaf lamina width
TO:0000132 - basal internode diameter
TO:0000145 - internode length
TO:0000590 - grain weight
TO:0000152 - panicle number
TO:0000653 - seed development trait
TO:0000040 - panicle length
TO:0002660 - cytokinin content
TO:0006001 - salt tolerance
TO:0000231 - endospermless
TO:0000539 - large vascular bundle number
TO:0000357 - growth and development trait
TO:0000397 - grain size
TO:0000207 - plant height
TO:0000339 - stem thickness
TO:0000621 - inflorescence development trait
TO:0002616 - flowering time
TO:0000391 - seed size
TO:0000696 - starch content
 PO:0007633 - endosperm development stage
PO:0020056 - tegmen
PO:0001083 - inflorescence development stage
PO:0001170 - seed development stage
PO:0009089 - endosperm
PO:0000230 - inflorescence meristem
Os06g0275500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g16390.1
FIE2 OsFIE2
FIE
OsWD40-153
WD40-153
OsDWD46
DWD46
OsPcG5
PcG5
 FERTILIZATION-INDEPENDENT ENDOSPERM 2 FERTILIZATION-INDEPENDENT ENDOSPERM2
Fertilization-Independent Endosperm 2
Polycomb protein OsFIE2
DWD motif- containing protein 46
Polycomb group protein 5
 8 Tolerance and resistance - Stress tolerance
Seed - Morphological traits - Embryo
Character as QTL - Yield and productivity
Seed - Morphological traits - Endosperm
Character as QTL - Plant growth activity
 GO:0009651 - response to salt stress
GO:0051782 - negative regulation of cell division
GO:0043078 - polar nucleus
GO:0005886 - plasma membrane
GO:0009409 - response to cold
GO:0005634 - nucleus
GO:0070734 - histone H3-K27 methylation
GO:0009960 - endosperm development
GO:0045892 - negative regulation of transcription, DNA-dependent
GO:0016571 - histone methylation
GO:0019954 - asexual reproduction
GO:0040029 - regulation of gene expression, epigenetic
GO:0005737 - cytoplasm
GO:0000003 - reproduction
GO:0006349 - genetic imprinting
GO:0009793 - embryonic development ending in seed dormancy
 TO:0000207 - plant height
TO:0000484 - seed shape
TO:0000357 - growth and development trait
TO:0000019 - seedling height
TO:0006001 - salt tolerance
TO:0000620 - embryo development trait
 PO:0007633 - endosperm development stage
PO:0009009 - plant embryo
PO:0020056 - tegmen
Os08g0137100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g04270.1
LOC_Os08g04270.2
LOC_Os08g04270.3
WFP OsSPL14
SPL14
IPA1
WFP/IPA1
OsSPL14/WFP/IPA1
OsIPA1
IPA1/OsSPL14
 WEALTHY FARMER'S PANICLE IDEAL PLANT ARCHITECTURE 1
Ideal Plant Architecture 1
Ideal Plant Architecture1
Squamosa promoter-binding-like protein 14
SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 14
Squamosa promoter binding protein like-14
IDEAL PLANT ARCHITECTURE1
 8 Seed - Physiological traits - Storage substances
Tolerance and resistance - Stress tolerance
Character as QTL - Plant growth activity
Character as QTL - Germination
Character as QTL - Yield and productivity
Vegetative organ - Root
Character as QTL - Grain quality
Reproductive organ - Panicle, Mode of branching
Tolerance and resistance - Disease resistance
Vegetative organ - Culm
Seed - Physiological traits - Dormancy
Seed - Morphological traits - Endosperm
Vegetative organ - Leaf
Seed
 GO:0048623 - seed germination on parent plant
GO:0009960 - endosperm development
GO:0010187 - negative regulation of seed germination
GO:0010081 - regulation of inflorescence meristem growth
GO:0010432 - bract development
GO:0010162 - seed dormancy
GO:0010371 - regulation of gibberellin biosynthetic process
GO:0060359 - response to ammonium ion
GO:0045487 - gibberellin catabolic process
GO:0006350 - transcription
GO:0008270 - zinc ion binding
GO:0042742 - defense response to bacterium
GO:0009607 - response to biotic stimulus
GO:0009409 - response to cold
GO:0009626 - plant-type hypersensitive response
GO:0010050 - vegetative phase change
GO:0048506 - regulation of timing of meristematic phase transition
GO:0009651 - response to salt stress
GO:0048366 - leaf development
GO:0009755 - hormone-mediated signaling
GO:0009736 - cytokinin mediated signaling
GO:0005982 - starch metabolic process
GO:0005634 - nucleus
GO:0048364 - root development
GO:0003677 - DNA binding
GO:0045449 - regulation of transcription
GO:0009740 - gibberellic acid mediated signaling
GO:0050832 - defense response to fungus
GO:0010229 - inflorescence development
GO:0010116 - positive regulation of abscisic acid biosynthetic process
GO:0010231 - maintenance of seed dormancy
GO:0048316 - seed development
 TO:0000329 - tillering ability
TO:0000107 - endosperm storage protein-1 content
TO:0000346 - tiller number
TO:0000456 - spikelet number
TO:0000017 - anatomy and morphology related trait
TO:0002675 - gibberellic acid content
TO:0000396 - grain yield
TO:0000175 - bacterial blight disease resistance
TO:0000166 - gibberellic acid sensitivity
TO:0000109 - endosperm storage protein-2 content
TO:0000586 - seminal root length
TO:0000487 - endosperm color
TO:0000104 - floury endosperm
TO:0000222 - head rice
TO:0000303 - cold tolerance
TO:0000547 - primary branch number
TO:0000447 - filled grain number
TO:0002653 - endosperm storage protein content
TO:0000696 - starch content
TO:0000162 - seed quality
TO:0000266 - chalky endosperm
TO:0000340 - total soluble sugar content
TO:0006001 - salt tolerance
TO:0002637 - leaf size
TO:0000656 - root development trait
TO:0000227 - root length
TO:0000253 - seed dormancy
TO:0000179 - biotic stress trait
TO:0000619 - vivipary
TO:0000135 - leaf length
TO:0000357 - growth and development trait
TO:0000455 - seed set percent
TO:0000152 - panicle number
TO:0000011 - nitrogen sensitivity
TO:0002759 - grain number
TO:0000653 - seed development trait
TO:0000621 - inflorescence development trait
TO:0000074 - blast disease
TO:0002689 - leaf sheath length
TO:0002685 - crown root number
TO:0000050 - inflorescence branching
 PO:0007520 - root development stage
PO:0001083 - inflorescence development stage
PO:0025034 - leaf
PO:0025487 - bract primordium
PO:0001170 - seed development stage
PO:0007057 - 0 seed germination stage
Os08g0509600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g39890.1
qFLL9 qFLL9
 FLAG LEAF LENGTH 9 9 Character as QTL - Plant growth activity
Vegetative organ - Leaf
 -
PIN9 OsPIN9
 PIN PROTEIN 9 1 Character as QTL - Plant growth activity
Biochemical character
Tolerance and resistance - Stress tolerance
Vegetative organ - Culm
Vegetative organ - Root
 GO:0009959 - negative gravitropism
GO:0006979 - response to oxidative stress
GO:0009733 - response to auxin stimulus
GO:0046686 - response to cadmium ion
GO:0009409 - response to cold
GO:0009735 - response to cytokinin stimulus
GO:0009725 - response to hormone stimulus
GO:0043067 - regulation of programmed cell death
GO:0009651 - response to salt stress
GO:0007584 - response to nutrient
GO:0010929 - positive regulation of auxin mediated signaling pathway
GO:0005886 - plasma membrane
GO:0055085 - transmembrane transport
GO:0016021 - integral to membrane
GO:0010311 - lateral root formation
GO:0009734 - auxin mediated signaling pathway
GO:0048364 - root development
 TO:0000167 - cytokinin sensitivity
TO:0001006 - adventitious root number
TO:0000227 - root length
TO:0000605 - hydrogen peroxide content
TO:0002657 - oxidative stress
TO:0002693 - gravity response trait
TO:0002662 - leaf rolling tolerance
TO:0000357 - growth and development trait
TO:0002672 - auxin content
TO:0000207 - plant height
TO:0000303 - cold tolerance
TO:0000401 - plant growth hormone sensitivity
TO:0000163 - auxin sensitivity
TO:0000656 - root development trait
TO:0006001 - salt tolerance
TO:0000011 - nitrogen sensitivity
 PO:0007520 - root development stage
Os01g0802700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g58860.1
PGI1 Pgi1(Pgia)
Pgia
Pgi_1
Pgi1
GPI-A
PHI-A
Pgi-a
PGI-a
OsPGI1c
PGI1c
 PHOSPHOGLUCOISOMERASE 1 Phosphoglucoisomerase1
Phosphoglucoisomerase 1
Phosphoglucoisomerase-1
Glucose-6-phosphate isomerase
cytosolic A
Phosphoglucose isomerase A
Phosphohexose isomerase A
 3 Character as QTL - Plant growth activity
Biochemical character
Tolerance and resistance - Insect resistance
Tolerance and resistance - Stress tolerance
 GO:0009753 - response to jasmonic acid stimulus
GO:0006096 - glycolysis
GO:0080027 - response to herbivore
GO:0006094 - gluconeogenesis
GO:0009611 - response to wounding
GO:0005829 - cytosol
GO:0002213 - defense response to insect
GO:0004347 - glucose-6-phosphate isomerase activity
 TO:0000424 - brown planthopper resistance
TO:0000172 - jasmonic acid sensitivity
TO:0000357 - growth and development trait
TO:0002668 - jasmonic acid content
TO:0002667 - abscisic acid content
TO:0000571 - shoot fresh weight
TO:0000578 - root fresh weight
TO:0006003 - oligosaccharide content
TO:0000605 - hydrogen peroxide content
TO:0006005 - fructose content
 PO:0025034 - leaf
PO:0009005 - root
PO:0020104 - leaf sheath
PO:0009010 - seed
Os03g0776000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g56460.1
LOC_Os03g56460.2
LOC_Os03g56460.3
ST1 st1(ws1)
ws1
st1
OsST1
RNRS1
OsRNRS1
rnrs1
RNRS
SDL/RNRS1
SDL
OsSDL
NSL2
OsNSL2
 STRIPE 1 stripe1
stripe 1
stripe-1
ribonucleotide reductase small subunit 1
stripe and drooping leaf
Narrow and Stripe Leaf 2
 6 Character as QTL - Plant growth activity
Coloration - Chlorophyll
Vegetative organ - Leaf
Reproductive organ - panicle
 GO:0045787 - positive regulation of cell cycle
GO:0048366 - leaf development
GO:0005634 - nucleus
GO:0005737 - cytoplasm
GO:0010229 - inflorescence development
GO:0008284 - positive regulation of cell proliferation
GO:0045740 - positive regulation of DNA replication
GO:0009266 - response to temperature stimulus
GO:0033305 - chlorophyll a biosynthetic process
GO:0009658 - chloroplast organization
GO:0015995 - chlorophyll biosynthetic process
 TO:0000069 - variegated leaf
TO:0000370 - leaf width
TO:0000357 - growth and development trait
TO:0000655 - leaf development trait
TO:0000495 - chlorophyll content
TO:0000326 - leaf color
TO:0000432 - temperature response trait
TO:0000455 - seed set percent
TO:0000456 - spikelet number
TO:0000557 - secondary branch number
TO:0000547 - primary branch number
TO:0000152 - panicle number
TO:0000207 - plant height
TO:0000470 - vascular tissue related trait
TO:0000295 - chlorophyll-b content
TO:0000293 - chlorophyll-a content
TO:0000621 - inflorescence development trait
 PO:0009005 - root
PO:0009025 - vascular leaf
PO:0009047 - stem
PO:0001083 - inflorescence development stage
PO:0001050 - leaf development stage
PO:0009049 - inflorescence
PO:0020104 - leaf sheath
PO:0025034 - leaf
Os06g0257450 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g14620.1
image Id ( 6774 )
qPH-3-5(t) (qPHT3-5) qPH-3-5(t) (qPHT3-5)
 plant height (QTL)-3-5(t) plant height (QTL)-3-5(t)
 Character as QTL - Plant growth activity
 -
qPH-3-6(t) (qPHT3-6) qPH-3-6(t) (qPHT3-6)
 plant height (QTL)-3-6(t) plant height (QTL)-3-6(t)
 Character as QTL - Plant growth activity
 -
qPH-7-1(t) (qPHT1-1) qPH-7-1(t) (qPHT1-1)
 plant height (QTL)-7-1(t) plant height (QTL)-7-1(t)
 Character as QTL - Plant growth activity
 -
qRGAF-4-1(t) (rgaf2a) qRGAF-4-1(t) (rgaf2a)
 retention of the green area of the flag leaf (QTL)-4-1(t) retention of the green area of the flag leaf (QTL)-4-1(t)
 Character as QTL - Plant growth activity
 -
qRGAF-4-2(t) (rgaf2a) qRGAF-4-2(t) (rgaf2a)
 retention of the green area of the flag leaf (QTL)-4-2(t) retention of the green area of the flag leaf (QTL)-4-2(t)
 Character as QTL - Plant growth activity
 -
GA2OX3 OsGA2ox3
ga2ox 3
OsGA2ox-3
GA2ox3
GA2ox-3
GA2ox4
 GIBBERELLIN 2-OXIDASE 3 rice GA 2-oxidase3
GA 2-oxidase 3
Gibberellin 2-oxidase 3
 1 Character as QTL - Yield and productivity
Biochemical character
Tolerance and resistance - Stress tolerance
Character as QTL - Plant growth activity
Vegetative organ - Culm
 GO:0009625 - response to insect
GO:0009753 - response to jasmonic acid stimulus
GO:0009741 - response to brassinosteroid stimulus
GO:0009742 - brassinosteroid mediated signaling
GO:0009938 - negative regulation of gibberellic acid mediated signaling
GO:0045487 - gibberellin catabolic process
GO:0009685 - gibberellin metabolic process
GO:0009651 - response to salt stress
GO:0009725 - response to hormone stimulus
GO:0009409 - response to cold
 TO:0000396 - grain yield
TO:0000329 - tillering ability
TO:0000303 - cold tolerance
TO:0000051 - stem strength
TO:0000019 - seedling height
TO:0000207 - plant height
TO:0000401 - plant growth hormone sensitivity
TO:0000172 - jasmonic acid sensitivity
TO:0002677 - brassinosteroid sensitivity
TO:0000011 - nitrogen sensitivity
TO:0006001 - salt tolerance
TO:0001034 - relative plant height
TO:0002675 - gibberellic acid content
TO:0000357 - growth and development trait
 Os01g0757200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g55240.1
qPH-1-6(t) (qPH1) qPH-1-6(t) (qPH1)
 plant height (QTL)-1-6(t) plant height (QTL)-1-6(t)
 1 Character as QTL - Plant growth activity
 -
qPH-2-1(t) qPH-2-1(t)
 plant height (QTL)-2-1(t) plant height (QTL)-2-1(t)
 2 Character as QTL - Plant growth activity
 -
qPH-4-5 (t) (qPH4) qPH-4-5 (t) (qPH4)
 plant height (QTL)-4-5(t) plant height (QTL)-4-5(t)
 4 Character as QTL - Plant growth activity
 -
qPH-5-4(t) (qPH5) qPH-5-4(t) (qPH5)
 plant height (QTL)-5-4(t) plant height (QTL)-5-4(t)
 5 Character as QTL - Plant growth activity
 -
qPH-6-3(t) (qPH6) qPH-6-3(t) (qPH6)
 plant height (QTL)-6-3(t) plant height (QTL)-6-3(t)
 6 Character as QTL - Plant growth activity
 -
qPH-10-2(t) (qPH10) qPH-10-2(t) (qPH10)
 plant height (QTL)-10-2(t) plant height (QTL)-10-2(t)
 10 Character as QTL - Plant growth activity
 -
qPH-11-3(t) (qPH11) qPH-11-3(t) (qPH11)
 plant height (QTL)-11-3(t) plant height (QTL)-11-3(t)
 11 Character as QTL - Plant growth activity
 -
qSPW qSDW-1-2(t) (qSDW1)
 SHOOT DRY WEIGHT QTL shoot dry weight (QTL)-1-2(t)
 1 Character as QTL - Plant growth activity
 -
qSDW-2-1(t) (qSDW2) qSDW-2-1(t) (qSDW2)
 shoot dry weight (QTL)-2-1(t) shoot dry weight (QTL)-2-1(t)
 2 Character as QTL - Plant growth activity
 -
qSDW-3-2(t) (qSDW3) qSDW-3-2(t) (qSDW3)
 shoot dry weight (QTL)-3-2(t) shoot dry weight (QTL)-3-2(t)
 3 Character as QTL - Plant growth activity
 -
qSDW-5-3(t) (qSDW5) qSDW-5-3(t) (qSDW5)
 shoot dry weight (QTL)-5-3(t) shoot dry weight (QTL)-5-3(t)
 5 Character as QTL - Plant growth activity
 -
qSDW-10-1(t) (qSDW10) qSDW-10-1(t) (qSDW10)
 shoot dry weight (QTL)-10-1(t) shoot dry weight (QTL)-10-1(t)
 10 Character as QTL - Plant growth activity
 -
qSDW-11-1(t) (qSDW11) qSDW-11-1(t) (qSDW11)
 shoot dry weight (QTL)-11-1(t) shoot dry weight (QTL)-11-1(t)
 11 Character as QTL - Plant growth activity
 -
qTDW-2-1(t) (qTDW2) qTDW-2-1(t) (qTDW2)
 total dry weight (QTL)-2-1(t) total dry weight (QTL)-2-1(t)
 2 Character as QTL - Plant growth activity
 -
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