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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 Reproductive organ - Pollination, fertilization, fertility
Character as QTL - Plant growth activity
Reproductive organ - Heading date
Biochemical character
 GO:0003677 - DNA binding
GO:0005515 - protein binding
GO:0006334 - nucleosome assembly
GO:0009567 - double fertilization forming a zygote and endosperm
GO:0048573 - photoperiodism, flowering
GO:0009960 - endosperm development
GO:0051983 - regulation of chromosome segregation
GO:0051382 - kinetochore assembly
GO:0046982 - protein heterodimerization activity
GO:0000776 - kinetochore
GO:0005634 - nucleus
GO:0030527 - structural constituent of chromatin
GO:0009793 - embryonic development ending in seed dormancy
GO:0000775 - chromosome, centromeric region
GO:0000786 - nucleosome
GO:0007276 - gamete generation
 TO:0002757 - flag leaf length
TO:0000421 - pollen fertility
TO:0000137 - days to heading
TO:0000455 - seed set percent
TO:0000207 - plant height
TO:0000040 - panicle length
TO:0000620 - embryo development trait
TO:0002616 - flowering time
 PO:0007633 - endosperm development stage
PO:0007631 - plant embryo stage
Os05g0489800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g41080.1
LOC_Os05g41080.2
CPN60 chaperonin 60
 CHAPERONIN 60 Biochemical character
 GO:0006457 - protein folding
GO:0016465 - chaperonin ATPase complex
 -
CSLD1 csld1
OsCSLD1
OsCslD1
 CELLULOSE SYNTHASE LIKE D1 Cellulose Synthase-Like D1
Cellulose synthase-like protein D1
 10 Biochemical character
 GO:0030244 - cellulose biosynthetic process
GO:0016760 - cellulose synthase (UDP-forming) activity
GO:0005794 - Golgi apparatus
GO:0016021 - integral to membrane
GO:0016020 - membrane
GO:0007047 - cell wall organization
GO:0005886 - plasma membrane
 Os10g0578200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os10g42750.1
CYCD3 CYCD3
 D-TYPE CYCLIN 3 Biochemical character
 GO:0051301 - cell division
GO:0007049 - cell cycle
GO:0005634 - nucleus
 -
CYCD7 CYCD7
 D-TYPE CYCLIN 7 Biochemical character
 GO:0051301 - cell division
GO:0005634 - nucleus
GO:0007049 - cell cycle
 -
EXPA7 OsEXPA7
EXP7
OsEXP7
OsaEXPa1.26
 ALPHA-EXPANSIN 7 Expansin-A7
Alpha-expansin-7
 3 Biochemical character
 GO:0019898 - extrinsic to membrane
GO:0016023 - cytoplasmic membrane-bounded vesicle
GO:0005576 - extracellular region
GO:0009664 - plant-type cell wall organization
GO:0005618 - cell wall
 Os03g0822000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g60720.1
EXPB12 OsEXPB12
OsaEXPb1.17
 BETA-EXPANSIN 12 Expansin-B12
Beta-expansin-12
 3 Biochemical character
 GO:0005576 - extracellular region
GO:0005618 - cell wall
GO:0007047 - cell wall organization
GO:0019898 - extrinsic to membrane
GO:0016023 - cytoplasmic membrane-bounded vesicle
GO:0019953 - sexual reproduction
 Os03g0645000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g44290.1
LOC_Os03g44290.2
LOC_Os03g44290.3
GH3-8 OsGH3-8
OsMGH3
OsGH3.8
GH3.8
OsGH3-2
 GH3-8 7 Character as QTL - Yield and productivity
Vegetative organ - Culm
Tolerance and resistance - Disease resistance
Reproductive organ - Spikelet, flower, glume, awn
Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0009863 - salicylic acid mediated signaling pathway
GO:0009867 - jasmonic acid mediated signaling pathway
GO:0009651 - response to salt stress
GO:0009852 - auxin catabolic process
GO:0006955 - immune response
GO:0010279 - indole-3-acetic acid amido synthetase activity
GO:0016874 - ligase activity
GO:0051607 - defense response to virus
GO:0009908 - flower development
 TO:0000172 - jasmonic acid sensitivity
TO:0000020 - black streak dwarf virus resistance
TO:0002672 - auxin content
TO:0000622 - flower development trait
TO:0006001 - salt tolerance
TO:0000207 - plant height
TO:0000401 - plant growth hormone sensitivity
TO:0000346 - tiller number
 PO:0007615 - flower development stage
PO:0009066 - anther
PO:0009049 - inflorescence
PO:0009010 - seed
Os07g0592600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g40290.1
GID1 gid1
OsGID1
Thl
Os GID1
 GIBBERELLIN INSENSITIVE DWARF1 GIBBERELLIN-INSENSITIVE DWARF1
Gibberellin receptor GID1
Gibberellin-insensitive dwarf protein 1
Protein GIBBERELLIN INSENSITIVE DWARF1
Thumbelina
GA-insensitive dwarf 1
 5 Tolerance and resistance - Stress tolerance
Seed - Physiological traits - Dormancy
Vegetative organ - Culm
Tolerance and resistance - Disease resistance
 GO:0004872 - receptor activity
GO:0010162 - seed dormancy
GO:0016787 - hydrolase activity
GO:0009609 - response to symbiotic bacterium
GO:0009414 - response to water deprivation
GO:0009738 - abscisic acid mediated signaling
GO:0010271 - regulation of chlorophyll catabolic process
GO:0010115 - regulation of abscisic acid biosynthetic process
GO:0006109 - regulation of carbohydrate metabolic process
GO:0009740 - gibberellic acid mediated signaling
GO:0014001 - sclerenchyma cell differentiation
GO:2000037 - regulation of stomatal complex patterning
GO:2000038 - regulation of stomatal complex development
GO:0050832 - defense response to fungus
GO:0005634 - nucleus
GO:0008152 - metabolic process
GO:0009409 - response to cold
GO:0009739 - response to gibberellin stimulus
 TO:0000135 - leaf length
TO:0000303 - cold tolerance
TO:0000074 - blast disease
TO:0000495 - chlorophyll content
TO:0000470 - vascular tissue related trait
TO:0000175 - bacterial blight disease resistance
TO:0000291 - carbohydrate content
TO:0000253 - seed dormancy
TO:0000207 - plant height
TO:0000166 - gibberellic acid sensitivity
TO:0000286 - submergence sensitivity
TO:0000615 - abscisic acid sensitivity
TO:0000276 - drought tolerance
TO:0000566 - stomatal frequency
 Os05g0407500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g33730.1
HSA32 Hsa32
OsHSA32
OsPPS1
 HEAT-STRESS-ASSOCIATED 32KD PROTEIN heat-stress-associated 32-kD protein
rice ortholog of Hsa32
Hsa32 homolog
phosphosulfolactate synthase 1
 6 Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0009408 - response to heat
GO:0006950 - response to stress
GO:0004252 - serine-type endopeptidase activity
GO:0005618 - cell wall
GO:0010286 - heat acclimation
GO:0010608 - posttranscriptional regulation of gene expression
GO:0019295 - coenzyme M biosynthetic process
 TO:0000259 - heat tolerance
 Os06g0682900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g46900.1
LOC_Os06g46900.2
LOC_Os06g46900.3
LOC_Os06g46900.4
HSP70 OsHSP70
OsEnS-45
EnS-45
 HEAT SHOCK PROTEIN 70KD endosperm-specific gene 45
 3 Tolerance and resistance - Stress tolerance
 GO:0009408 - response to heat
GO:0003773 - heat shock protein activity
GO:0042026 - protein refolding
 TO:0000259 - heat tolerance
 Os03g0277300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g16920.1
MCM10 OsMCM10
 MINI-CHROMOSOME MAINTENANCE PROTEIN 10 mini-chromosome maintenance protein 10
 9 Biochemical character
 GO:0005524 - ATP binding
GO:0003677 - DNA binding
GO:0006260 - DNA replication
 Os09g0539400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os09g36820.1
MCM8 OsMCM8
 MINI-CHROMOSOME MAINTENANCE PROTEIN 8 mini-chromosome maintenance protein 8
 5 Biochemical character
 GO:0006260 - DNA replication
GO:0005524 - ATP binding
GO:0003677 - DNA binding
 Os05g0464100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g38850.1
MCM9 OsMCM9
 MINI-CHROMOSOME MAINTENANCE PROTEIN 9 mini-chromosome maintenance protein 9
 6 Biochemical character
 GO:0003677 - DNA binding
GO:0005524 - ATP binding
GO:0006260 - DNA replication
 Os06g0218500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g11500.1
MEL1 mel1
OsMEL1
MEAL1
OsMEAL1
OsAGO5c
 MEIOSIS ARRESTED AT LEPTOTENE 1 MEIOSIS ARRESTED AT LEPTOTENE1
Protein argonaute MEL1
Protein MEIOSIS ARRESTED AT LEPTOTENE 1
 3 Reproductive organ - Pollination, fertilization, fertility - Male sterility
Reproductive organ - Pollination, fertilization, fertility - Meiosis
 GO:0010152 - pollen maturation
GO:0048236 - plant-type spore development
GO:0035197 - siRNA binding
GO:0033169 - histone H3-K9 demethylation
GO:0045836 - positive regulation of meiosis
GO:0009561 - megagametogenesis
GO:0003676 - nucleic acid binding
GO:0006396 - RNA processing
GO:0007281 - germ cell development
GO:0005730 - nucleolus
GO:0005731 - nucleolus organizer region
GO:0005737 - cytoplasm
GO:0031047 - gene silencing by RNA
GO:0055046 - microgametogenesis
GO:0009555 - pollen development
GO:0005739 - mitochondrion
GO:0007140 - male meiosis
GO:0007143 - female meiosis
 TO:0000436 - spikelet sterility
TO:0000729 - meiotic cell cycle trait
TO:0000353 - aborted at pollen maturity stage
TO:0000727 - sporogenesis
TO:0000053 - pollen sterility
TO:0000358 - female sterility
TO:0000437 - male sterility
 PO:0025202 - microsporangium
PO:0009049 - inflorescence
PO:0000431 - megasporocyte
PO:0000018 - ovule primordium
PO:0006014 - male archesporial cell
PO:0009066 - anther
PO:0025277 - pollen sac
PO:0007600 - floral organ differentiation stage
PO:0001007 - pollen development stage
PO:0020047 - microsporocyte
PO:0001016 - L mature pollen stage
PO:0006015 - female archesporial cell
Os03g0800200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g58600.1
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 Tolerance and resistance - Lesion mimic
Vegetative organ - Culm
Tolerance and resistance - Insect resistance
Character as QTL - Yield and productivity
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
 GO:0010200 - response to chitin
GO:0009867 - jasmonic acid mediated signaling pathway
GO:0010112 - regulation of systemic acquired resistance
GO:0051607 - defense response to virus
GO:0009734 - auxin mediated signaling pathway
GO:0009609 - response to symbiotic bacterium
GO:0008219 - cell death
GO:0006952 - defense response
GO:0002215 - defense response to nematode
GO:0005634 - nucleus
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:0042742 - defense response to bacterium
GO:0009737 - response to abscisic acid stimulus
GO:0002213 - defense response to insect
GO:0005829 - cytosol
GO:0009814 - defense response, incompatible interaction
GO:0050832 - defense response to fungus
GO:0009682 - induced systemic resistance
GO:0009611 - response to wounding
GO:0009408 - response to heat
GO:0009627 - systemic acquired resistance
 TO:0000148 - viral disease resistance
TO:0000175 - bacterial blight disease resistance
TO:0000615 - abscisic acid sensitivity
TO:0000384 - nematode damage resistance
TO:0000656 - root development trait
TO:0000346 - tiller number
TO:0000163 - auxin sensitivity
TO:0000401 - plant growth hormone sensitivity
TO:0000255 - sheath blight disease resistance
TO:0000063 - mimic response
TO:0000112 - disease resistance
TO:0000074 - blast disease
TO:0000207 - plant height
TO:0000181 - seed weight
TO:0000172 - jasmonic acid sensitivity
TO:0000445 - seed number
TO:0000424 - brown planthopper resistance
 PO:0007089 - stem elongation stage
PO:0007520 - root development stage
Os01g0194300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g09800.1
NOC3 NOC3
 NUCLEOLAR COMPLEX-ASSOCIATED PROTEIN 3 Nucleolar complex-associated protein 3
 6 Biochemical character
 GO:0006260 - DNA replication
 Os06g0498500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g30320.1
NPP1 OsNPP1
OsPAP27b
PAP27B
 NUCLEOTIDE PYROPHOSPHATASE/PHOSPHODIESTERASE 1 Nucleotide Pyrophosphatase/Phosphodiesterase 1
Purple acid phosphatase 27b
 8 Seed - Physiological traits - Storage substances
Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0001666 - response to hypoxia
GO:0004528 - phosphodiesterase I activity
GO:0046872 - metal ion binding
GO:0003993 - acid phosphatase activity
GO:0005618 - cell wall
GO:0004551 - nucleotide diphosphatase activity
 TO:0000207 - plant height
TO:0000696 - starch content
TO:0000233 - root volume
TO:0000015 - oxygen sensitivity
 Os08g0531000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g41880.1
NTRC OsNTRC
NtrC
OsGRL15
 CHLOROPLAST NADPH THIOREDOXIN REDUCTASE NADPH thioredoxin reductase
GRX-like protein 15
glutaredoxin-like protein 15
chloroplastic type NTR
chloroplastic type NADPH-dependent thioredoxin reductase
 7 Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0016117 - carotenoid biosynthetic process
GO:0050660 - FAD binding
GO:0009507 - chloroplast
GO:0009570 - chloroplast stroma
GO:0010380 - regulation of chlorophyll biosynthetic process
GO:0010027 - thylakoid membrane organization
GO:0010581 - regulation of starch biosynthetic process
GO:0008047 - enzyme activator activity
GO:0016671 - oxidoreductase activity, acting on sulfur group of donors, disulfide as acceptor
GO:0019288 - isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway
GO:0019430 - removal of superoxide radicals
GO:0042744 - hydrogen peroxide catabolic process
GO:0045454 - cell redox homeostasis
GO:0046686 - response to cadmium ion
GO:0022900 - electron transport chain
GO:0004791 - thioredoxin-disulfide reductase activity
 TO:0002657 - oxidative stress
 Os07g0657900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g46410.1
NYC1 nyc1
OsNYC1
 NON-YELLOW COLORING 1 Chlorophyl b degrading enzyme
Chlase
Non-Yellow Coloring 1
non-yellow coloring1
Probable chlorophyll(ide) b reductase NYC1
chloroplastic
Protein NON-YELLOW COLORING 1
short-chain dehydrogenase/reductase NYC1
 1 Vegetative organ - Leaf
Coloration - Chlorophyll
Biochemical character
 GO:0005488 - binding
GO:0009535 - chloroplast thylakoid membrane
GO:0010304 - PSII associated light-harvesting complex II catabolic process
GO:0010150 - leaf senescence
GO:0016021 - integral to membrane
GO:0034256 - chlorophyll(ide) b reductase activity
GO:0055114 - oxidation reduction
GO:0009536 - plastid
GO:0015996 - chlorophyll catabolic process
GO:0016491 - oxidoreductase activity
GO:0042170 - plastid membrane
 TO:0002712 - stay green trait
TO:0000495 - chlorophyll content
TO:0000249 - leaf senescence
TO:0000599 - enzyme activity
 PO:0009038 - palea
PO:0020122 - inflorescence axis
PO:0020104 - leaf sheath
PO:0001054 - 4 leaf senescence stage
PO:0009025 - vascular leaf
PO:0009037 - lemma
Os01g0227100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g12710.2
LOC_Os01g12710.1
KRP1 OsiICK1
Orysa;KRP1
OrysaICK1
Orysa;ICK1
CDKI
OsICK1
ICK1
OsKRP1
 KIP-RELATED PROTEIN 1 Cyclin-dependent kinase inhibitor 1
KIP-related protein 1
inhibitor of cyclin-dependent kinase 1
 2 Biochemical character
 GO:0004861 - cyclin-dependent protein kinase inhibitor activity
GO:0005634 - nucleus
GO:0007050 - cell cycle arrest
GO:0007067 - mitosis
GO:0051301 - cell division
 Os02g0762400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g52480.1
BOR1 OsBOR1
 EFFLUX BORON TRANSPORTER 1 Boron transporter 1
 12 Biochemical character
 GO:0016021 - integral to membrane
GO:0046715 - boron transporter activity
GO:0005452 - inorganic anion exchanger activity
GO:0046713 - boron transport
 Os12g0566000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os12g37840.1
LOC_Os12g37840.2
ACO7 OsACO7
 AMINOCYCLOPROPANE-1-CARBOXYLIC ACID OXIDASE 7 ACC oxidase 7
1-Aminocyclopropane-1-carboxylate oxidase 7
 1 Biochemical character
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
 GO:0009737 - response to abscisic acid stimulus
GO:0009651 - response to salt stress
GO:0006970 - response to osmotic stress
GO:0016706 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors
GO:0009266 - response to temperature stimulus
GO:0046686 - response to cadmium ion
GO:0009693 - ethylene biosynthetic process
GO:0042742 - defense response to bacterium
GO:0009617 - response to bacterium
 TO:0000615 - abscisic acid sensitivity
TO:0000432 - temperature response trait
TO:0000175 - bacterial blight disease resistance
TO:0006001 - salt tolerance
TO:0000095 - osmotic response sensitivity
 PO:0009047 - stem
Os01g0580500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g39860.1
BRL1 OsBRL1
 BRI1 LIKE 1 BRI1-like receptor kinase 1
 9 Other
 GO:0009729 - detection of brassinosteroid stimulus
GO:0009742 - brassinosteroid mediated signaling
GO:0004872 - receptor activity
GO:0004672 - protein kinase activity
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0005886 - plasma membrane
 Os09g0293500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os09g12240.1
BRL3 OsBRL3
 BRI1 LIKE 3 BRI1-like receptor kinase 3
 8 Other
 GO:0009729 - detection of brassinosteroid stimulus
GO:0009742 - brassinosteroid mediated signaling
GO:0004872 - receptor activity
GO:0004672 - protein kinase activity
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0005886 - plasma membrane
 Os08g0342300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g25380.1
CIPK01 OsCIPK01
CIPK1
OsCIPK1
OsSnRK3.3
SnRK3.3
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 1 CBL-interacting protein kinase 1
Sucrose nonfermenting-1-related protein kinase 3.3
 1 Vegetative organ - Culm
Character as QTL - Yield and productivity
Tolerance and resistance - Stress tolerance
Biochemical character
Seed - Morphological traits - Grain shape
 GO:0030307 - positive regulation of cell growth
GO:0009409 - response to cold
GO:0009740 - gibberellic acid mediated signaling
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0004713 - protein tyrosine kinase activity
GO:0009413 - response to flooding
GO:0030145 - manganese ion binding
GO:0007165 - signal transduction
GO:0006468 - protein amino acid phosphorylation
 TO:0000397 - grain size
TO:0020034 - glume width
TO:0000590 - grain weight
TO:0000114 - flooding related trait
TO:0000391 - seed size
TO:0000396 - grain yield
TO:0002675 - gibberellic acid content
TO:0000207 - plant height
TO:0000382 - 1000-seed weight
TO:0000734 - grain length
TO:0020033 - glume length
TO:0000432 - temperature response trait
TO:0000303 - cold tolerance
 Os01g0292200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g18800.5
LOC_Os01g18800.4
LOC_Os01g18800.3
LOC_Os01g18800.1
LOC_Os01g18800.2
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 Tolerance and resistance - Stress tolerance
Vegetative organ - Root
Biochemical character
 GO:0006468 - protein amino acid phosphorylation
GO:0004674 - protein serine/threonine kinase activity
GO:0006995 - cellular response to nitrogen starvation
GO:0031667 - response to nutrient levels
GO:0042128 - nitrate assimilation
GO:0007165 - signal transduction
GO:0005524 - ATP binding
GO:0042594 - response to starvation
GO:0019740 - nitrogen utilization
GO:0044136 - development of symbiont on or near host rhizosphere
GO:0044403 - symbiosis, encompassing mutualism through parasitism
GO:0030145 - manganese ion binding
 TO:0000152 - panicle number
TO:0001027 - net photosynthetic rate
TO:0000011 - nitrogen sensitivity
TO:0000495 - chlorophyll content
TO:0000644 - relative root dry weight
TO:0000636 - relative shoot dry weight
TO:0000371 - yield trait
TO:0000455 - seed set percent
 Os07g0678600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g48100.1
CIPK03 OsCIPK03
CIPK3
OsCIPK3
OsSnRK3.27
SnRK3.27
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 3 CBL-interacting protein kinase 3
Sucrose nonfermenting-1-related protein kinase 3.27
 7 Biochemical character
 GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0005739 - mitochondrion
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0030145 - manganese ion binding
 Os07g0687000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g48760.1
CIPK04 OsCIPK04
CIPK4
OsCIPK4
OsSnRK3.35
SnRK3.35
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 4 CBL-interacting protein kinase 4
Sucrose nonfermenting-1-related protein kinase 3.35
 12 Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0009414 - response to water deprivation
GO:0030145 - manganese ion binding
GO:0009409 - response to cold
 TO:0000276 - drought tolerance
TO:0000303 - cold tolerance
 Os12g0603700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os12g41090.1
CIPK05 OsCIPK05
CIPK5
OsCIPK5
OsSTA7
OsSnRK3.2
SnRK3.2
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 5 CBL-interacting protein kinase 5
Sucrose nonfermenting-1-related protein kinase 3.2
 1 Reproductive organ - Spikelet, flower, glume, awn
Tolerance and resistance - Stress tolerance
Tolerance and resistance - Disease resistance
Biochemical character
 GO:0042742 - defense response to bacterium
GO:0031348 - negative regulation of defense response
GO:0009409 - response to cold
GO:0007165 - signal transduction
GO:0030145 - manganese ion binding
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0009413 - response to flooding
 TO:0000303 - cold tolerance
TO:0000203 - bacterial leaf streak disease resistance
TO:0000114 - flooding related trait
 PO:0009066 - anther
Os01g0206700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g10890.1
CIPK06 OsCIPK06
CIPK6
OsCIPK6
OsSnRK3.28
SnRK3.28
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 6 CBL-interacting protein kinase 6
Sucrose nonfermenting-1-related protein kinase 3.28
 8 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0007165 - signal transduction
GO:0006468 - protein amino acid phosphorylation
GO:0009414 - response to water deprivation
GO:0009409 - response to cold
GO:0009651 - response to salt stress
GO:0030145 - manganese ion binding
 TO:0000276 - drought tolerance
TO:0000303 - cold tolerance
TO:0006001 - salt tolerance
 Os08g0441100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os08g34240.1
CIPK07 OsCIPK07
CIPK7
OsCIPK7
OsSnRK3.13
SnRK3.13
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 7 CBL-interacting protein kinase 7
Sucrose nonfermenting-1-related protein kinase 3.13
 3 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0016048 - detection of temperature stimulus
GO:0005886 - plasma membrane
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0005739 - mitochondrion
GO:0006468 - protein amino acid phosphorylation
GO:0019722 - calcium-mediated signaling
GO:0009409 - response to cold
GO:0009414 - response to water deprivation
GO:0030145 - manganese ion binding
GO:0007165 - signal transduction
 TO:0000276 - drought tolerance
TO:0000303 - cold tolerance
 Os03g0634400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g43440.1
CIPK08 OsCIPK08
CIPK8
OsCIPK8
OsSnRK3.4
SnRK3.4
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 8 CBL-interacting protein kinase 8
Sucrose nonfermenting-1-related protein kinase 3.4
 1 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0009413 - response to flooding
GO:0030145 - manganese ion binding
GO:0007165 - signal transduction
GO:0060359 - response to ammonium ion
 TO:0000114 - flooding related trait
 Os01g0536000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g35184.2
LOC_Os01g35184.1
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 Biochemical character
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
 GO:0004674 - protein serine/threonine kinase activity
GO:0009414 - response to water deprivation
GO:0007165 - signal transduction
GO:0006468 - protein amino acid phosphorylation
GO:0005524 - ATP binding
GO:0060359 - response to ammonium ion
GO:0030145 - manganese ion binding
 TO:0000276 - drought tolerance
TO:0000227 - root length
 Os03g0126800 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g03510.2
LOC_Os03g03510.1
CIPK10 OsCIPK10
OsSnRK3.12
SnRK3.12
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 10 CBL-interacting protein kinase 10
Sucrose nonfermenting-1-related protein kinase 3.12
 3 Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0030145 - manganese ion binding
GO:0004674 - protein serine/threonine kinase activity
GO:0009414 - response to water deprivation
 TO:0000276 - drought tolerance
 Os03g0339900 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os03g22050.4
LOC_Os03g22050.1
LOC_Os03g22050.2
LOC_Os03g22050.3
CIPK11 OsCIPK11
OsMSURPK2
MSURPK2
OsSnRK3.7
SnRK3.7
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 11 CBL-interacting protein kinase 11
Sucrose nonfermenting-1-related protein kinase 3.7
 1 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0030145 - manganese ion binding
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
 Os01g0824600 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g60910.1
LOC_Os01g60910.2
CIPK13 OsCIPK13
OsSnRK3.1
SnRK3.1
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 13 Putative CBL-interacting protein kinase 13
Sucrose nonfermenting-1-related protein kinase 3.1
 1 Biochemical character
 GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0030145 - manganese ion binding
 Os01g0206300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os01g10870.1
CIPK14 OsCIPK14
OsSnRK3.33
SnRK3.33
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 14 CBL-interacting protein kinase 14
Sucrose nonfermenting-1-related protein kinase 3.33
 12 Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0030145 - manganese ion binding
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0050832 - defense response to fungus
GO:0009413 - response to flooding
GO:0060359 - response to ammonium ion
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
 TO:0000114 - flooding related trait
TO:0000255 - sheath blight disease resistance
 Os12g0113500 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os12g02200.2
LOC_Os12g02200.1
CIPK15 OsCIPK15
OsSnRK3.31
SnRK3.31
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 15 CBL-interacting protein kinase 15
Sucrose nonfermenting-1-related protein kinase 3.31
Calcineurin B-like protein-interacting protein kinase 15
 11 Biochemical character
Tolerance and resistance - Disease resistance
Tolerance and resistance - Stress tolerance
 GO:0030145 - manganese ion binding
GO:0019722 - calcium-mediated signaling
GO:0042742 - defense response to bacterium
GO:0004674 - protein serine/threonine kinase activity
GO:0006468 - protein amino acid phosphorylation
GO:0005524 - ATP binding
GO:0009413 - response to flooding
GO:0009610 - response to symbiotic fungus
GO:0007165 - signal transduction
 TO:0000203 - bacterial leaf streak disease resistance
TO:0000114 - flooding related trait
TO:0000175 - bacterial blight disease resistance
 Os11g0113700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os11g02240.1
CIPK16 OsCIPK16
OsSnRK3.29
SnRK3.29
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 16 CBL-interacting protein kinase 16
Sucrose nonfermenting-1-related protein kinase 3.29
 9 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0004674 - protein serine/threonine kinase activity
GO:0006468 - protein amino acid phosphorylation
GO:0009414 - response to water deprivation
GO:0009651 - response to salt stress
GO:0005524 - ATP binding
GO:0030145 - manganese ion binding
GO:0007165 - signal transduction
 TO:0000276 - drought tolerance
TO:0006001 - salt tolerance
 Os09g0418000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os09g25090.1
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 Character as QTL - Plant growth activity
Biochemical character
Tolerance and resistance - Disease resistance
Character as QTL - Germination
Tolerance and resistance - Stress tolerance
Vegetative organ - Root
Vegetative organ - Culm
 GO:0009414 - response to water deprivation
GO:0007165 - signal transduction
GO:0046686 - response to cadmium ion
GO:0009408 - response to heat
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0009651 - response to salt stress
GO:0006952 - defense response
GO:0010187 - negative regulation of seed germination
GO:0005737 - cytoplasm
GO:0030145 - manganese ion binding
 TO:0000276 - drought tolerance
TO:0000352 - plant dry weight
TO:0000207 - plant height
TO:0006001 - salt tolerance
TO:0000227 - root length
TO:0000578 - root fresh weight
TO:0000112 - disease resistance
TO:0000259 - heat tolerance
 Os05g0136200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g04550.1
CIPK18 OsCIPK18
OsSnRK3.16
SnRK3.16
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 18 CBL-interacting protein kinase 18
Sucrose nonfermenting-1-related protein kinase 3.16
 5 Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0030145 - manganese ion binding
GO:0009414 - response to water deprivation
GO:0004674 - protein serine/threonine kinase activity
 TO:0000276 - drought tolerance
 Os05g0332300 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g26820.1
PK4 OsCIPK19
OsPK4
OsPK04
Os-CIPK19
CIPK19
OsSnRK3.20
SnRK3.20
 PROTEIN KINASE 4 protein kinase 4
CBL-interacting protein kinase 19
CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 19
Sucrose nonfermenting-1-related protein kinase 3.20
 5 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0009414 - response to water deprivation
GO:0004674 - protein serine/threonine kinase activity
GO:0006468 - protein amino acid phosphorylation
GO:0030145 - manganese ion binding
GO:0005524 - ATP binding
GO:0009413 - response to flooding
GO:0009651 - response to salt stress
GO:0007165 - signal transduction
 TO:0000114 - flooding related trait
TO:0006001 - salt tolerance
TO:0000276 - drought tolerance
 Os05g0514200 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g43840.1
CIPK20 OsCIPK20
OsSnRK3.15
SnRK3.15
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 20 CBL-interacting protein kinase 20
Sucrose nonfermenting-1-related protein kinase 3.15
 5 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0030145 - manganese ion binding
GO:0004674 - protein serine/threonine kinase activity
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0005524 - ATP binding
GO:0009413 - response to flooding
 TO:0000114 - flooding related trait
 Os05g0208100 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g11790.1
CIPK21 OsCIPK21
OsSnRK3.24
SnRK3.24
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 21 CBL-interacting protein kinase 21
Sucrose nonfermenting-1-related protein kinase 3.24
 7 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0009651 - response to salt stress
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0009536 - plastid
GO:0009409 - response to cold
GO:0030145 - manganese ion binding
 TO:0006001 - salt tolerance
TO:0000303 - cold tolerance
 Os07g0637000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g44290.1
CIPK22 OsCIPK22
OsSnRK3.17
SnRK3.17
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 22 CBL-interacting protein kinase 22
Sucrose nonfermenting-1-related protein kinase 3.17
 5 Biochemical character
 GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
GO:0004674 - protein serine/threonine kinase activity
GO:0030145 - manganese ion binding
 Os05g0334750 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os05g26940.1
CIPK23 OsCIPK23
Os-CIPK23
OsSnRK3.23
SnRK3.23
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 23 CBL-interacting protein kinase 23
CBL-Interacting Protein Kinase23
Sucrose nonfermenting-1-related protein kinase 3.23
 7 Biochemical character
Tolerance and resistance - Stress tolerance
Tolerance and resistance - Disease resistance
 GO:0009414 - response to water deprivation
GO:0005634 - nucleus
GO:0004674 - protein serine/threonine kinase activity
GO:0007165 - signal transduction
GO:0006468 - protein amino acid phosphorylation
GO:0005739 - mitochondrion
GO:0005524 - ATP binding
GO:0050687 - negative regulation of defense response to virus
GO:0030145 - manganese ion binding
GO:0060359 - response to ammonium ion
 TO:0000207 - plant height
TO:0000276 - drought tolerance
TO:0000514 - potassium uptake
TO:0000213 - rice grassy stunt 1 and 2 virus resistance
TO:0001034 - relative plant height
 Os07g0150700 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os07g05620.2
LOC_Os07g05620.1
SOS2 CIPK24
OsCIPK24
OsSOS2
OsSnRK3.22
SnRK3.22
 SALT OVERLY SENSITIVE 2 CBL-interacting protein kinase 24
salt overly sensitive 2
low-cesium rice mutant 1
Sucrose nonfermenting-1-related protein kinase 3.22
 6 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0009651 - response to salt stress
GO:0009705 - plant-type vacuole membrane
GO:0030145 - manganese ion binding
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0006468 - protein amino acid phosphorylation
GO:0007165 - signal transduction
 TO:0006001 - salt tolerance
 PO:0009005 - root
PO:0025034 - leaf
PO:0000025 - root tip
Os06g0606000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g40370.1
CIPK25 OsCIPK25
OsSnRK3.21
SnRK3.21
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 25 CBL-interacting protein kinase 25
Sucrose nonfermenting-1-related protein kinase 3.21
 6 Biochemical character
Tolerance and resistance - Stress tolerance
 GO:0006468 - protein amino acid phosphorylation
GO:0004674 - protein serine/threonine kinase activity
GO:0005524 - ATP binding
GO:0009414 - response to water deprivation
GO:0030145 - manganese ion binding
GO:0007165 - signal transduction
GO:0009651 - response to salt stress
 TO:0000276 - drought tolerance
TO:0006001 - salt tolerance
 Os06g0543400 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os06g35160.1
CIPK26 OsCIPK26
OsSnRK3.8
SnRK3.8
 CALCINEURIN B-LIKE PROTEIN-INTERACTING PROTEIN KINASE 26 CBL-interacting protein kinase 26
Sucrose nonfermenting-1-related protein kinase 3.8
 2 Tolerance and resistance - Stress tolerance
Biochemical character
 GO:0007165 - signal transduction
GO:0009409 - response to cold
GO:0006468 - protein amino acid phosphorylation
GO:0005524 - ATP binding
GO:0004674 - protein serine/threonine kinase activity
GO:0030145 - manganese ion binding
 TO:0000303 - cold tolerance
 Os02g0161000 Oryzabase ( IRGSP 1.0 / Build5 )
Rap ( IRGSP 1.0 / Build5 ) 		LOC_Os02g06570.1
LOC_Os02g06570.2
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/rice/oryzabase