Gene - Detail

Detail of Gene

Basic Information
CGSNL Gene Symbol C
Gene Symbol Synonym C, Cp, OsC1, Os-C1, C1, OsMyb6, Myb6, OsPL6, PL6, OsGL1E, GL1E, Os2R_MYB63, 2R_MYB63, OsC1PLSr, C1PLSr, MYB2-74, OsMYB2-74
CGSNL Gene Name CHROMOGEN FOR ANTHOCYANIN
Gene Name Synonym Chromogen for anthocyanin, Chromogen, Rice C1 anthocyanin regulatory gene, myb transcription factor 6, transcription factor MYB6, Oryza saliva C1, rice homolog of maize C1, Purple Leaf 6. GLABRA1E, GLABRA 1E, R2R3-MYB Transcription Factor 63, R2R3-MYB transcription factor 2-74
Protein Name
Allele C-Bs, C-B, C-Bp, C-Bt, C-Br, C-Bd, C-Bk, C-Bc, C-Bm, pl6
Chromosome No. 6
Explanation Produce the precursor substance of pigment (chromogen) such as flabon and catechin. Complementary with A. Os-C1 is a candidate for the C. MK636605. R2R3-MYB. Y15219. AB111867-AB111875:Oryza sativa C1, AB111876-AB111883:Oryza rufipogon C1, AB111884:Oryza glaberrima C1, AB111884:Oryza glumipatula C1. a Colorless1/Purple leaf (C1/Pl) like regulatory gene. HQ379701-HQ379705. metabolite: Cyanidin 3-O-glucoside. a rice homologs of the Arabidopsis R2R3 MYB transcription factor GLABRA1 (GL1). TO:0020076: phenolic compound content. PO:0025616: lemma apiculus. PO:0030123: panicle inflorescence. OrC1 (Oryza rufipongon functional chromogen gene C). GO:1902884: positive regulation of response to oxidative stress.
Trait Class Vegetative organ - Leaf
Reproductive organ - Inflorescence
Coloration - Anthocyanin
Coloration - Chlorophyll
Seed - Morphological traits
Tolerance and resistance - Stress tolerance
Other
Expression
Sequence/Locus
cDNA Accession No. AK062487
MSU ID LOC_Os06g10350.1
RAP ID Os06g0205100
Links Oryzabase Chromosome View ( IRGSP 1.0 / Build5 )
RAP-DB ( IRGSP 1.0 / Build5 )
Related IDs List ( IRGSP 1.0 / Build5 )
INSD Accession List
(Test version) 		Link to INSD Accession List
Map
Locate(cM) 44.0
Link map Classical linkage map
References
Peng W., Zhang Y., Xie H., Yu Y., Zhu M.
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Int J Mol Sci 2025  26(13) 
Occurrence, Biosynthesis, and Health Benefits of Anthocyanins in Rice and Barley.
Li N., Xu Y., Lu Y.
Plants (Basel) 2024  13(8) 
A Regulatory Mechanism on Pathways: Modulating Roles of MYC2 and BBX21 in the Flavonoid Network.
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BMC Genomics 2024  25(1)  797
Genome-wide identification of R2R3-MYB transcription factor subfamily genes involved in salt stress in rice (Oryza sativa L.).
Zou T., Wang X., Sun T., Rong H., Wu L., Deng J., Guo T., Wang H., Wang J., Huang M.
Int J Mol Sci 2023  24(7) 
MYB Transcription Factor <i>OsC1PLSr</i> Involves the Regulation of Purple leaf sheath in Rice.
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PLoS ONE 2022  17(3)  e0266087
Physio-biochemical responses and expressional profiling analysis of drought tolerant genes in new promising rice genotype.
Kang L., Teng Y., Cen Q., Fang Y., Tian Q., Zhang X., Wang H., Zhang X., Xue D.
Plants (Basel) 2022  11(15) 
Genome-Wide Identification of R2R3-MYB Transcription Factor and Expression Analysis under Abiotic Stress in Rice.
Mackon E., Jeazet Dongho Epse Mackon GC., Ma Y., Haneef Kashif M., Ali N., Usman B., Liu P.
Biomolecules 2021  11(3) 
Recent Insights into Anthocyanin Pigmentation, Synthesis, Trafficking, and Regulatory Mechanisms in Rice (<i>Oryza sativa</i> L.) Caryopsis.
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BMC Plant Biol. 2021  21(1)  234
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Theor. Appl. Genet. 2021  134(5)  1531-1543
A functional chromogen gene C from wild rice is involved in a different anthocyanin biosynthesis pathway in indica and japonica.
Kim D.H., Yang J., Ha S.H., Kim J.K., Lee J.Y., Lim S.H.
Front Plant Sci 2021  12  765049
An OsKala3, R2R3 MYB TF, Is a Common Key Player for Black Rice Pericarp as Main Partner of an OsKala4, bHLH TF.
Upadhyaya G., Das A., Ray S.
Physiol Plant 2021  173(4)  2334-2349
A rice R2R3-MYB (OsC1) transcriptional regulator improves oxidative stress tolerance by modulating anthocyanin biosynthesis.
Dong N.Q., Sun Y., Guo T., Shi C.L., Zhang Y.M., Kan Y., Xiang Y.H., Zhang H., Yang Y.B., Li Y.C., Zhao H.Y., Yu H.X., Lu Z.Q., Wang Y., Ye W.W., Shan J.X., Lin H.X.
Nat Commun 2020  11(1)  2629
UDP-glucosyltransferase regulates grain size and abiotic stress tolerance associated with metabolic flux redirection in rice.
Khan A., Jalil S., Cao H., Tsago Y., Sunusi M., Chen Z., Shi C., Jin X.
Plants (Basel) 2020  9(11) 
The Purple Leaf (<i>pl6</i>) Mutation Regulates Leaf Color by Altering the Anthocyanin and Chlorophyll Contents in Rice.
Zheng J., Wu H., Zhu H., Huang C., Liu C., Chang Y., Kong Z., Zhou Z., Wang G., Lin Y., Chen H.
New Phytol. 2019  223(2)  705-721
Determining factors, regulation system, and domestication of anthocyanin biosynthesis in rice leaves.
Kim D.H., Park S., Lee J.Y., Ha S.H., Lee J.G., Lim S.H.
Int J Mol Sci 2018  19(8) 
A Rice B-Box Protein, OsBBX14, Finely Regulates Anthocyanin Biosynthesis in Rice.
Wang W., Mauleon R., Hu Z., Chebotarov D., Tai S., Wu Z., Li M., Zheng T., Fuentes R.R., Zhang F., Mansueto L., Copetti D., Sanciangco M., Palis K.C., Xu J., Sun C., Fu B., Zhang H., Gao Y., Zhao X., Shen F., Cui X., Yu H., Li Z., Chen M., Detras J., Zhou Y., Zhang X., Zhao Y., Kudrna D., Wang C., Li R., Jia B., Lu J., He X., Dong Z., Xu J., Li Y., Wang M., Shi J., Li J., Zhang D., Lee S., Hu W., Poliakov A., Dubchak I., Ulat V.J., Borja F.N., Mendoza J.R., Ali J., Li J., Gao Q., Niu Y., Yue Z., Naredo M.E.B., Talag J., Wang X., Li J., Fang X., Yin Y., Glaszmann J.C., Zhang J., Li J., Hamilton R.S., Wing R.A., Ruan J., Zhang G., Wei C., Alexandrov N., McNally K.L., Li Z., Leung H.
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Genomic variation in 3,010 diverse accessions of Asian cultivated rice.
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Signatures of adaptation in the weedy rice genome.
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BMC Genet. 2014  15  71
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Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism.
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RGN 2000  17  54-56
A candidate for C (Chromogen for anthocyanin) gene.
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DB Reference
Gramene ID GR:0061106
Ontologies
Gene Ontology flavonoid metabolic process( GO:0009812 )
anthocyanin biosynthetic process( GO:0009718 )
DNA binding( GO:0003677 )
regulation of anthocyanin biosynthetic process( GO:0031540 )
chloroplast organization( GO:0009658 )
response to oxidative stress( GO:0006979 )
chlorophyll metabolic process( GO:0015994 )
nucleus( GO:0005634 )
response to water deprivation( GO:0009414 )
regulation of flavonoid biosynthetic process( GO:0009962 )
positive regulation of anthocyanin biosynthetic process( GO:0031542 )
Trait Ontology internode color( TO:0000426 )
seed coat color( TO:0000190 )
awn color( TO:0000141 )
basal leaf sheath color( TO:0000367 )
apiculus color( TO:0000140 )
leaf collar color( TO:0000364 )
lemma and palea color( TO:0000264 )
anthocyanin content( TO:0000071 )
leaf color( TO:0000326 )
sterile lemma color( TO:0000400 )
photosynthetic ability( TO:0000316 )
oxidative stress( TO:0002657 )
abscisic acid content( TO:0002667 )
cytokinin content( TO:0002660 )
leaf thickness( TO:0000258 )
chloroplast development trait( TO:0002715 )
photosynthetic rate( TO:0001015 )
stomatal conductance( TO:0000522 )
transpiration rate( TO:0001018 )
hydrogen peroxide content( TO:0000605 )
chlorophyll-b content( TO:0000295 )
chlorophyll-a content( TO:0000293 )
chlorophyll content( TO:0000495 )
stigma color( TO:0000185 )
flavonoid content( TO:0000290 )
gibberellic acid content( TO:0002675 )
total soluble sugar content( TO:0000340 )
drought tolerance( TO:0000276 )
leaf sheath color( TO:0002724 )
Plant Ontology inflorescence( PO:0009049 )
shoot system( PO:0009006 )
leaf( PO:0025034 )
stigma( PO:0009073 )
awn( PO:0025349 )
paleal apiculus( PO:0006033 )
lemma( PO:0009037 )
palea( PO:0009038 )
leaf sheath( PO:0020104 )
seed maturation stage( PO:0007632 )
leaf collar( PO:0006012 )
lemma awn( PO:0006032 )
seed( PO:0009010 )
vascular leaf( PO:0009025 )
shoot internode( PO:0005005 )
Related Strains
F Lines 26
Backcross Fn Generation (T65) 1
Phenotype images
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Last updated
Jan 12, 2026

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