Gene - Detail

Detail of Gene

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Basic Information
CGSNL Gene Symbol C
Gene Symbol Synonym C, Cp, OsC1, Os-C1, OsMyb6, Myb6
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
Protein Name
Allele C-Bs, C-B, C-Bp, C-Bt, C-Br, C-Bd, C-Bk, C-Bc, C-Bm
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. PO:0020104; leaf sheath ; PO:0006033; paleal apiculus ; PO:0009037; lemma ; PO:0009010; seed ; PO:0006032; awn ; PO:0005005; shoot internode ; PO:0009038; palea ; PO:0006012; leaf collar ; PO:0009025; leaf. 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. LOC_Os06g10350. metabolite: Cyanidin 3-O-glucoside.
Trait Class Reproductive organ - Inflorescence
Coloration - Anthocyanin
Seed - Morphological traits
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
Locate(cM) 44.0
Link map Classical linkage map
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.
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.
Nature 2018  557(7703)  43-49
Genomic variation in 3,010 diverse accessions of Asian cultivated rice.
Li L.F., Li Y.L., Jia Y., Caicedo A.L., Olsen K.M.
Nat. Genet. 2017  49(5)  811-814
Signatures of adaptation in the weedy rice genome.
Chen W., Gao Y., Xie W., Gong L., Lu K., Wang W., Li Y., Liu X., Zhang H., Dong H., Zhang W., Zhang L., Yu S., Wang G., Lian X., Luo J.
Nat. Genet. 2014  46(7)  714-21
Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism.
Choudhury B.I., Khan M.L., Dayanandan S.
BMC Genet. 2014  15  71
Patterns of nucleotide diversity and phenotypes of two domestication related genes (OsC1 and Wx) in indigenous rice varieties in Northeast India.
Huang X., Zhao Y., Wei X., Li C., Wang A., Zhao Q., Li W., Guo Y., Deng L., Zhu C., Fan D., Lu Y., Weng Q., Liu K., Zhou T., Jing Y., Si L., Dong G., Huang T., Lu T., Feng Q., Qian Q., Li J., Han B.
Nat. Genet. 2012  44(1)  32-9
Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm.
Gao,D., He,B., Zhou,Y. and Sun,L.
Plant Cell Rep. 2011  30(5)  901-11
Genetic and molecular analysis of a purple sheath somaclonal mutant in japonica rice
Saitoh,K., Onishi,K., Mikami,I., Thidar,K. and Sano,Y.
Genetics 2004  168(2)  997-1007
Allelic Diversification at the C (OsC1) Locus of Wild and Cultivated Rice: Nucleotide Changes Associated With Phenotypes
Jia L., Michael T Clegg, Jiang T.
Plant Physiol. 2004  134(2)  575-85
Evolutionary dynamics of the DNA-binding domains in putative R2R3-MYB genes identified from rice subspecies indica and japonica genomes.
Lee,M.W., Qi,M. and Yang,Y.
Mol. Plant Microbe Interact. 2001  14(4)  527-535
A novel jasmonic acid-inducible rice myb gene associates with fungal infection and host cell death.
Mikami, I., A. Takahashi, Khin-Thidar and Y. Sano
RGN 2000  17  54-56
A candidate for C (Chromogen for anthocyanin) gene.
Nakazaki, T., H. Yamagata, M. Yamamoto, K. Ichitani and T. Tanisaka
Proc. 7th Intern. Congress SABRAO & Intern Symp. WSAA, Taichung District Agricultural Improvement Station, Taiwan, R.O.C. 1994  II.  459-465.
RFLP analysis for anthocyanin pigmentation genes of a mutant line in rice. In Toward enhanced and sustainable agricultural productivity in 2000's: Breeding research and biotechnology.
Kishimoto, N., E. Shimosaka, S. Matsuura and A. Saito
RGN 1992  9  118-124.
A current RFLP linkage map of rice Alignment of the molecular map with the classical map.
Kinoshita, T.
In Biology of Rice. S. Tsunoda and N. Takahashi eds. JSSP/Elsevier, Tokyo. 1984    187-274.
Gene analysis and linkage map.
Setty, M.V.N. and B. Misro
Can. J. Genet. Cytol. 1973  15(4)  779-789.
Complementary genic complex for anthocyanin pigmentation in the apiculus of rice (Oryza sativa L.).
Nagao, S. and M. Takahashi
J. Fac. Agr. Hokkaido Univ. 1963  53(1)  72-130.
Trial construction of twelve linkage groups in Japanese rice. (Genetical studies on rice plant, XXVII).
Nagao, S.
Adv. Genet. 1951  4  181-212.
Genic analysis and linkage relationship of characters in rice.
TextPresso Search Search textpresso for C ( Recent references may be retrievable, but without any warranty )
DB Reference
Gramene ID GR:0061106
Gene Ontology flavonoid metabolic process( GO:0009812 )
anthocyanin biosynthetic process( GO:0009718 )
DNA binding( GO:0003677 )
regulation of anthocyanin biosynthetic process( GO:0031540 )
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 )
Plant Ontology shoot internode( PO:0005005 )
vascular leaf( PO:0009025 )
seed( PO:0009010 )
leaf collar( PO:0006012 )
lemma awn( PO:0006032 )
palea( PO:0009038 )
leaf sheath( PO:0020104 )
seed maturation stage( PO:0007632 )
paleal apiculus( PO:0006033 )
lemma( PO:0009037 )
Related Strains
F Lines 26
Backcross Fn Generation (T65) 1
Phenotype images
Last updated
Aug 31, 2020