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Basic Information
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CGSNL Gene Symbol
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GN1A
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Gene Symbol Synonym
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Gn1a, OsCKX2, CKX2, ckx2, Gn1a/OsCKX2, Os CKX2, CKX2/Gn1a
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CGSNL Gene Name
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GRAIN NUMBER 1A
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Gene Name Synonym
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Cytokinin oxidase/dehydrogenase 2, grain number 1a, cytokinin oxidase 2, Grain number 1a/Cytokinin oxidase 2, Grain number 1 a
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Protein Name
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CYTOKININ OXIDASE/DEHYDROGENASE 2
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Allele
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Gn1a-Habataki, Gn1a-5150, Gn1a-T1, Gn1a-T2, Gn1a-T3, Gn1a-type 3, Gn1aST-1, osckx2, osckx2-m2, osckx2-m3
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Chromosome No.
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1
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Explanation
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AB205193. Q4ADV8. BGIOSGA002195. cytokinin oxidase/dehydrogenase. increase the number of reproductive organs. a negative regulator of grain number. GO:0090548: response to nitrate starvation. TO:0020098: nitrate sensitivity. GO:1902347: response to strigolactone.
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Trait Class
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Character as QTL - Yield and productivity
Biochemical character
Reproductive organ - Inflorescence
Tolerance and resistance - Stress tolerance
Reproductive organ - Spikelet, flower, glume, awn
Vegetative organ - Culm
Reproductive organ - Panicle, Mode of branching
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Expression
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Sequence/Locus
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cDNA Accession No.
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AK243684
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MSU ID
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LOC_Os01g10110.1
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RAP ID
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Os01g0197700
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Links
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Oryzabase Chromosome View
(
IRGSP 1.0
/
Build5
)
RAP-DB
(
IRGSP 1.0
/
Build5
)
Related IDs List (
IRGSP 1.0
/
Build5
)
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INSD Accession List
(Test version)
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Link to INSD Accession List
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Map
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Locate(cM)
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Link map
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Classical linkage map
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References
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Guan S., Han Y., Zhang J., Du Y., Chen Z., Miao C., Li J.
Genes (Basel) 2026 17(1)
Multiplex Gene Editing and Effect Analysis of Yield, Fragrance, and Blast Resistance Genes in Rice.
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Peng Y., Li Y., Zhai M., Jiang C., Liu Z., Xu X., Zhou G., Zheng C., Xie X.
Rice (N Y) 2025 18(1) 107
The Phytochrome-interacting factor OsPIL11 Coordinates grain weight and grain number Via Directly Regulating the Expression of OsMIR530 and OsCKX2 in Rice.
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Ku W., Su Y., Peng X., Wang R., Li H., Xiao L.
Plants (Basel) 2024 13(6)
Comparative Transcriptome Analysis Reveals Inhibitory Roles of Strigolactone in axillary bud Outgrowth in Ratoon Rice.
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Lu J., Jiang Z., Chen J., Xie M., Huang W., Li J., Zhuang C., Liu Z., Zheng S.
Plant Physiol. 2023
SET DOMAIN GROUP 711-mediated H3K27me3 methylation of cytokinin metabolism genes regulates organ size in rice.
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Zheng X., Zhang S., Liang Y., Zhang R., Liu L., Qin P., Zhang Z., Wang Y., Zhou J., Tang X., Zhang Y.
Plant Genome 2023 e20283
Loss-function mutants of OsCKX gene family based on CRISPR-Cas systems revealed their diversified roles in rice.
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Wang W., Chen W., Wang J.
BMC Plant Biol. 2023 23(1) 650
FRIZZLE PANICLE (FZP) regulates rice spikelets development through modulating cytokinin metabolism.
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Agata A., Ashikari M., Sato Y., Kitano H., Hobo T.
Breed. Sci. 2023 73(1) 86-94
Designing rice panicle architecture via developmental regulatory genes.
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Zha M., Zhao Y., Wang Y., Chen B., Tan Z.
Front Plant Sci 2022 13 837136
Strigolactones and Cytokinin Interaction in Buds in the Control of Rice Tillering.
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Liu M., Fan F., He S., Guo Y., Chen G., Li N., Li N., Yuan H., Si F., Yang F., Li S.
Rice (N Y) 2022 15(1) 17
Creation of Elite Rice with High-Yield, Superior-Quality and High Resistance to Brown Planthopper Based on Molecular Design.
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Huangfu L., Chen R., Lu Y., Zhang E., Miao J., Zuo Z., Zhao Y., Zhu M., Zhang Z., Li P., Xu Y., Yao Y., Liang G., Xu C., Zhou Y., Yang Z.
Plant Biotechnol. J. 2022
OsCOMT, encoding a caffeic acid O-methyltransferase in melatonin biosynthesis, increases rice grain yield through dual regulation of leaf senescence and vascular development.
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Qin B., Lu T., Xu Y., Shen W., Liu F., Xie X., Li Y., Wang K., Li R.
BMC Plant Biol. 2021 21(1) 298
Identification and characterization of An-4, a potential quantitative trait locus for awn development in rice.
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Huang L., Hua K., Xu R., Zeng D., Wang R., Dong G., Zhang G., Lu X., Fang N., Wang D., Duan P., Zhang B., Liu Z., Li N., Luo Y., Qian Q., Yao S., Li Y.
Plant Cell 2021
The LARGE2-APO1/APO2 regulatory module controls panicle size and grain number in rice.
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Yoon J., Jeong H.J., Baek G., Yang J., Peng X., Tun W., Kim S.T., An G., Cho L.H.
Plants (Basel) 2021 11(1)
A VIN3-like Protein OsVIL1 Is Involved in grain yield and Biomass in Rice.
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Guo T., Lu Z.Q., Shan J.X., Ye W.W., Dong N.Q., Lin H.X.
Plant Cell 2020 32(9) 2763-2779
<i>ERECTA1</i> Acts Upstream of the OsMKKK10-OsMKK4-OsMPK6 Cascade to Control spikelet number by Regulating Cytokinin Metabolism in Rice.
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Yang X., Wang J., Dai Z., Zhao X., Miao X., Shi Z.
Rice (N Y) 2019 12(1) 40
miR156f integrates panicle architecture through genetic modulation of branch number and pedicel length pathways.
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Duan J., Yu H., Yuan K., Liao Z., Meng X., Jing Y., Liu G., Chu J., Li J.
Proc. Natl. Acad. Sci. U.S.A. 2019 116(28) 14319-14324
Strigolactone promotes cytokinin degradation through transcriptional activation of <i>CYTOKININ OXIDASE/DEHYDROGENASE 9</i> in rice.
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Wang J., Wu B., Lu K., Wei Q., Qian J., Chen Y., Fang Z.
Plant Physiol. 2019 180(2) 1031-1045
The Amino Acid Permease 5 (OsAAP5) Regulates tiller number and grain yield in Rice.
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Zhou J., Xin X., He Y., Chen H., Li Q., Tang X., Zhong Z., Deng K., Zheng X., Akher S.A., Cai G., Qi Y., Zhang Y.
Plant Cell Rep. 2018
Multiplex QTL editing of grain-related genes improves yield in elite rice varieties.
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Lu K., Wu B., Wang J., Zhu W., Nie H., Qian J., Huang W., Fang Z.
Plant Biotechnol. J. 2018
Blocking amino acid transporter OsAAP3 improves grain yield by promoting outgrowth buds and increasing tiller number in rice.
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Yang J., Cho L.H., Yoon J., Yoon H., Wai A.H., Hong W.J., Han M., Sakakibara H., Liang W., Jung K.H., Jeon J.S., Koh H.J., Zhang D., An G.
Plant Biotechnol. J. 2018
Chromatin interacting factor OsVIL2 increases biomass and rice grain yield.
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Kim S.R., Ramos J.M., Hizon R.J.M., Ashikari M., Virk P.S., Torres E.A., Nissila E., Jena K.K.
Sci Rep 2018 8(1) 3833
Introgression of a functional epigenetic OsSPL14WFP allele into elite indica rice genomes greatly improved panicle traits and grain yield.
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He Q., Yang L., Hu W., Zhang J., Xing Y.
Sci Rep 2018 8(1) 14051
Overexpression of an auxin receptor OsAFB6 significantly enhanced grain yield by increasing cytokinin and decreasing auxin concentrations in rice panicle.
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Huang Y., Bai X., Luo M., Xing Y.
J Integr Plant Biol 2018
short panicle 3 controls panicle architecture by upregulating APO2/RFL and increasing cytokinin content in rice.
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Jiang S., Sun S., Bai L., Ding G., Wang T., Xia T., Jiang H., Zhang X., Zhang F.
PLoS ONE 2017 12(7) e0181037
Resequencing and variation identification of whole genome of the japonica rice variety "Longdao24" with high yield.
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Joshi R., Sahoo K.K., Tripathi A.K., Kumar R., Gupta B.K., Pareek A., Singla-Pareek SL.
Plant Cell Environ. 2017
TKnockdown of an inflorescence meristem-specific cytokinin oxidase - OsCKX2 in rice reduces yield penalty under salinity stress condition.
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Kim S.R., Ramos J., Ashikari M., Virk P.S., Torres E.A., Nissila E., Hechanova S.L., Mauleon R., Jena K.K.
Rice (N Y) 2016 9(1) 12
Development and validation of allele-specific SNP/indel markers for eight yield-enhancing genes using whole-genome sequencing strategy to increase yield potential of rice, Oryza sativa L.
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Jin J., Hua L., Zhu Z., Tan L., Zhao X., Zhang W., Liu F., Fu Y., Cai H., Sun X., Gu P., Xie D., Sun C.
Plant Cell 2016 28(10) 2453-2463
GAD1 Encodes a Secreted Peptide That Regulates Grain Number, Grain Length, and Awn Development in Rice Domestication.
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Sun P., Zhang W., Wang Y., He Q., Shu F., Liu H., Wang J., Wang J., Yuan L., Deng H.
J Integr Plant Biol 2016
OsGRF4 controls grain shape, panicle length and seed shattering in rice.
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Liu X., Zhou S., Wang W., Ye Y., Zhao Y., Xu Q., Zhou C., Tan F., Cheng S., Zhou D.X.
Plant Cell 2015 27(5) 1428-44
Regulation of histone methylation and reprogramming of gene expression in the rice inflorescence meristem.
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Peng Y., Gao Z., Zhang B., Liu C., Xu J., Ruan B., Hu J., Dong G., Guo L., Liang G., Qian Q.
Plant Cell Rep. 2014 33(11) 1843-50
Fine mapping and candidate gene analysis of a major QTL for panicle structure in rice.
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Liang W., Shang F., Lin Q., Lou C., Zhang J.
Gene 2014 537(1) 1-5
Tillering and panicle branching genes in rice.
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Li S., Zhao B., Yuan D., Duan M., Qian Q., Tang L., Wang B., Liu X., Zhang J., Wang J., Sun J., Liu Z., Feng Y.Q., Yuan L., Li C.
Proc. Natl. Acad. Sci. U.S.A. 2013 110(8) 3167-72
Rice zinc finger protein DST enhances grain production through controlling Gn1a/OsCKX2 expression.
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Ikeda M., Miura K., Aya K., Kitano H., Matsuoka M.
Curr. Opin. Plant Biol. 2013 16(2) 213-20
Genes offering the potential for designing yield-related traits in rice.
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Luo J., Liu H., Zhou T., Gu B., Huang X., Shangguan Y., Zhu J., Li Y., Zhao Y., Wang Y., Zhao Q., Wang A., Wang Z., Sang T., Wang Z., Han B.
Plant Cell 2013 25(9) 3360-76
An-1 encodes a basic helix-loop-helix protein that regulates awn development, grain size, and grain number in rice.
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Jiang C.J., Shimono M., Sugano S., Kojima M., Liu X., Inoue H., Sakakibara H., Takatsuji H.
Mol. Plant Microbe Interact. 2013 26(3) 287-96
Cytokinins act synergistically with salicylic acid to activate defense gene expression in rice.
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Tsai Y.C., Weir N.R., Hill K., Zhang W., Kim H.J., Shiu S.H., Schaller G.E., Kieber J.J.
Plant Physiol. 2012 158(4) 1666-84
Characterization of genes involved in cytokinin signaling and metabolism from rice.
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Hirose,N., Makita,N., Kojima,M., Kamada-Nobusada,T. and Sakakibara,H.
Plant Cell Physiol. 2007 48(3) 523-539
Overexpression of a type-a response regulator alters rice morphology and cytokinin metabolism.
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Ashikari,M., Sakakibara,H., Lin,S., Yamamoto,T., Takashi,T., Nishimura,A., Angeles,E.R., Qian,Q., Kitano,H. and Matsuoka,M.
Science 2005 309(5735) 741-745
Cytokinin oxidase regulates rice grain production.
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DB Reference
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Gramene ID
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GR:0020051
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Ontologies
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Gene Ontology
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secretion by cell( GO:0032940 )
inflorescence development( GO:0010229 )
cytoplasmic membrane-bounded vesicle( GO:0016023 )
cytokinin dehydrogenase activity( GO:0019139 )
electron transport chain( GO:0022900 )
response to salt stress( GO:0009651 )
response to cytokinin stimulus( GO:0009735 )
response to starvation( GO:0042594 )
inflorescence morphogenesis( GO:0048281 )
cytokinin catabolic process( GO:0009823 )
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Trait Ontology
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inflorescence branching( TO:0000050 )
grain number( TO:0002759 )
harvest index( TO:0000128 )
photosynthetic ability( TO:0000316 )
vegetative vigor( TO:0000296 )
relative water content( TO:0000136 )
grain number per plant( TO:0000440 )
1000-seed weight( TO:0000382 )
panicle number( TO:0000152 )
cytokinin sensitivity( TO:0000167 )
spikelet number( TO:0000456 )
inflorescence development trait( TO:0000621 )
grain yield( TO:0000396 )
salt tolerance( TO:0006001 )
panicle length( TO:0000040 )
plant growth hormone sensitivity( TO:0000401 )
tiller number( TO:0000346 )
secondary branch number( TO:0000557 )
primary branch number( TO:0000547 )
cytokinin content( TO:0002660 )
carotenoid content( TO:0000496 )
chlorophyll content( TO:0000495 )
plant height( TO:0000207 )
cell membrane stability( TO:0000467 )
grain weight( TO:0000590 )
secondary branching of inflorescence( TO:0000142 )
primary branching of inflorescence( TO:0000052 )
grain size( TO:0000397 )
grain weight( TO:0000919 )
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Plant Ontology
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inflorescence meristem( PO:0000230 )
carpel( PO:0009030 )
inflorescence development stage( PO:0001083 )
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Related Strains
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Phenotype images
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Last updated
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Aug 12, 2026
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Update info.