Gene - Detail

Detail of Gene

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Basic Information
CGSNL Gene Symbol HD2
Gene Symbol Synonym Hd2(t), Hd2, qHD2(t), OsPRR37, Os-PRR37, PRR37, Prr4, OsPRR4, DTH7, Os DTH7, OsCCT28, CCT28, Ghd7.1, PRR37/Hd2, EH7-2, EH7-2/Hd2, Hd2/PRR37, PRR37-1a, PRR37-1b, PRR37-1c, PRR37-2a, PRR37- 2, HD7.2
CGSNL Gene Name Heading date 2
Gene Name Synonym Heading date (QTL)-2(t), Heading date 2, PSEUDO-RESPONSE REGULATOR 37, PSEUDO RESPONSE REGULATOR 37, pseudo-response regulator 4, Days to heading 7, Days to heading on chromosome 7, CCT domain-containing gene 28, CCT (CO, CO-LIKE and TOC1) domain protein 28, CCT domain protein 28, "grain number, plant height and heading date 7.1", Grain height date 7.1, Early heading7-2, Heading date 7.2
Protein Name
Allele prr37, PRR37-2a, PRR37(H143), PRR37(M23), PRR37-1, PRR37-1a, PRR37-1b, PRR37-1c, PRR37-2, PRR37-2a, osprr37, oscct28
Chromosome No. 7
Explanation KF977867, KF977868, KF977869, KF815740. AB189039, AB189042. Q0D3B6, A2YQ93. MT500239 - MT500363. NCBI-GEO database: GSE114188. GO:0035556: intracellular signal transduction. a rice ortholog of Arabidopsis gene for circadian clock component. a true ortholog of Arabidopsis PRR7. Our data showed that HD7.2 (from Oryza rufipogon) is likely a novel OsPRR37 allele (Jing et al. 2018).
Trait Class Vegetative organ - Culm
Reproductive organ - Heading date
Tolerance and resistance - Stress tolerance
Character as QTL - Yield and productivity
cDNA Accession No. AK066112
MSU ID LOC_Os07g49460.1
RAP ID Os07g0695100
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 map Classical linkage map
Li J., Qiu J.X., Zeng Q.H., Yi Zhuang, Zhang N., Xu S.X., Jin J., Dong Z.C., Chen L., Huang W.
Cell Rep 2023  42(7)  112765
OsTOC1 plays dual roles in the regulation of plant circadian clock by functioning as a direct transcription activator or repressor.
Ferrero-Serrano Á., Chakravorty D., Kirven K.J., Assmann S.M.
bioRxiv 2023   
Oryza CLIMtools: An Online Portal for Investigating Genome-Environment Associations in Rice.
Li Z., Gui R., Yu X., Liang C., Cui J., Zhao X., Zhang X., Yu P., Chen W., Sun J.
Front Plant Sci 2022  13  1059197
Genetic basis of the early heading of high-latitude weedy rice.
Andrade L., Lu Y., Cordeiro A., Costa J.M.F., Wigge P.A., Saibo N.J.M., Jaeger K.E.
Proc. Natl. Acad. Sci. U.S.A. 2022  119(26)  e2122582119
The evening complex integrates photoperiod signals to control flowering in rice.
Cai Z., Zhang Y., Tang W., Chen X., Lin C., Liu Y., Ye Y., Wu W., Duan Y.
Front Plant Sci 2022  13  853042
LUX ARRHYTHMO Interacts With ELF3a and ELF4a to Coordinate Vegetative Growth and Photoperiodic Flowering in Rice.
Zhang Q., Xie J., Wang X., Liu M., Zhu X., Yang T., Khan N.U., Sun C., Li J., Zhang Z., Li Z., Zhang H.
Front Plant Sci 2022  13  1097622
Natural variation of <i>RGN1a</i> regulates grain number per panicle in <i>japonica</i> rice.
Liu C., Li N., Lu Z., Sun Q., Pang X., Xiang X., Deng C., Xiong Z., Shu K., Yang F., Hu Z.
Front Plant Sci 2022  13  839457
CG and CHG Methylation Contribute to the Transcriptional Control of OsPRR37-output Genes in Rice.
Sun C., Zhang K., Zhou Y., Xiang L., He C., Zhong C., Li K., Wang Q., Yang C., Wang Q., Chen C., Chen D., Wang Y., Liu C., Yang B., Wu H., Chen X., Li W., Wang J., Xu P., Wang P., Fang J., Chu C., Deng X.
Plant Biotechnol. J. 2021  19(8)  1644-1657
Dual function of clock component OsLHY sets critical day length for photoperiodic flowering in rice.
Zhong H., Liu S., Meng X., Sun T., Deng Y., Kong W., Peng Z., Li Y.
BMC Genomics 2021  22(1)  86
Uncovering the genetic mechanisms regulating panicle architecture in rice with GPWAS and GWAS.
Cui Y., Wang J., Feng L., Liu S., Li J., Qiao W., Song Y., Zhang Z., Cheng Y., Zhang L., Zheng X., Yang Q.
Front Plant Sci 2020  11  864
A Combination of Long-Day Suppressor Genes Contributes to the Northward Expansion of Rice.
Shen C., Liu H., Guan Z., Yan J., Zheng T., Yan W., Wu C., Zhang Q., Yin P., Xing Y.
Plant Cell 2020  32(11)  3469-3484
Structural Insight into DNA Recognition by CCT/NF-YB/YC Complexes in Plant Photoperiodic Flowering.
Zhang J., Fan X., Hu Y., Zhou X., He Q., Liang L., Xing Y.
J Integr Plant Biol 2020   
Global analysis of CCT family knockout mutants identifies four genes involved in regulating heading date in rice.
Fujino K., Ikegaya T.
Breed. Sci. 2020  70(2)  193-199
A novel genotype DATTO5 developed using the five genes exhibits the fastest heading date designed in rice.
Hong Y., Zhang Y., Sinumporn S., Yu N., Zhan X., Shen X., Chen D., Yu P., Wu W., Liu Q., Cao Z., Zhao C., Cheng S., Cao L.
Plant J. 2018   
Premature leaf senescence 3, encoding a methyltransferase, is required for melatonin biosynthesis in rice.
Kim S.R., Torollo G., Yoon M.R., Kwak J., Lee C.K., Prahalada G.D., Choi I.R., Yeo U.S., Jeong O.Y., Jena K.K., Lee J.S.
Front Plant Sci 2018  9  1827
Loss-of-Function Alleles of <i>Heading date 1</i> (<i>Hd1</i>) Are Associated With Adaptation of Temperate <i>Japonica</i> Rice Plants to the Tropical Region.
Zhu C., Peng Q., Fu D., Zhuang D., Yu Y., Duan M., Xie W., Cai Y., Ouyang Y., Lian X., Wu C.
Plant Cell 2018  30(10)  2352-2367
The E3 Ubiquitin Ligase HAF1 Modulates Circadian Accumulation of EARLY FLOWERING3 to Control heading date in Rice under Long-Day Conditions.
Jing L., Rui X., Chunchao W., Lan Q., Xiaoming Z., Wensheng W., Yingbin D., Lizhen Z., Yanyan W., Yunlian C., Lifang Z., Weihua Q., Qingwen Y.
Sci Rep 2018  8(1)  2928
A heading date QTL, qHD7.2, from wild rice (Oryza rufipogon) delays flowering and shortens panicle length under long-day conditions.
Goretti D., Martignago D., Landini M., Brambilla V., Gómez-Ariza J., Gnesutta N., Galbiati F., Collani S., Takagi H., Terauchi R., Mantovani R., Fornara F.
PLoS Genet. 2017  13(1)  e1006530
Transcriptional and Post-transcriptional Mechanisms Limit HEADING DATE 1 (Hd1) Function to Adapt Rice to High Latitudes.
Yano K., Yamamoto E., Aya K., Takeuchi H., Lo P.C., Hu L., Yamasaki M., Yoshida S., Kitano H., Hirano K., Matsuoka M.
Nat. Genet. 2016  48(8)  927-34
Genome-wide association study using whole-genome sequencing rapidly identifies new genes influencing agronomic traits in rice.
Zhang L., Li Q., Dong H., He Q., Liang L., Tan C., Han Z., Yao W., Li G., Zhao H., Xie W., Xing Y.
Sci Rep 2015  5  7663
Three CCT domain-containing genes were identified to regulate heading date by candidate gene-based association mapping and transformation in rice.
Matsuzaki J., Kawahara Y., Izawa T.
Plant Cell 2015  27(3)  633-48
Punctual Transcriptional Regulation by the Rice Circadian Clock under Fluctuating Field Conditions.
Kwon C.T., Koo B.H., Kim D., Yoo S.C., Paek N.C.
Mol. Cells 2014   
Casein Kinases I and 2alpha Phosphorylate Oryza Sativa Pseudo-Response Regulator 37 (OsPRR37) in Photoperiodic Flowering in Rice.
Gao H., Jin M., Zheng X.M., Chen J., Yuan D., Xin Y., Wang M., Huang D., Zhang Z., Zhou K., Sheng P., Ma J., Ma W., Deng H., Jiang L., Liu S., Wang H., Wu C., Yuan L., Wan J.
Proc. Natl. Acad. Sci. U.S.A. 2014   
Days to heading 7, a major quantitative locus determining photoperiod sensitivity and regional adaptation in rice.
Hori K., Ogiso-Tanaka E., Matsubara K., Yamanouchi U., Ebana K., Yano M.
Plant J. 2013  76(1)  36-46
Hd16, a gene for casein kinase I, is involved in the control of rice flowering time by modulating the day-length response.
Koo B.H., Yoo S.C., Park J.W., Kwon C.T., Lee B.D., An G., Zhang Z., Li J., Li Z., Paek N.C.
Mol Plant 2013  6(6)  1877-88
Natural variation in OsPRR37 regulates heading date and contributes to rice cultivation at a wide range of latitudes.
Yan W., Liu H., Zhou X., Li Q., Zhang J., Lu L., Liu T., Liu H., Zhang C., Zhang Z., Shen G., Yao W., Chen H., Yu S., Xie W., Xing Y.
Cell Res. 2013  23(7)  969-71
Natural variation in Ghd7.1 plays an important role in grain yield and adaptation in rice.
Yang Y., Peng Q., Chen G.X., Li X.H., Wu C.Y.
Mol Plant 2013  6(1)  202-15
OsELF3 is Involved in Circadian Clock Regulation for Promoting Flowering under Long-Day Conditions in Rice.
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.
Cockram J., Thiel T., Steuernagel B., Stein N., Taudien S., Paul C Bailey, Donal M O'Sullivan
PLoS ONE 2012  7(9)  e45307
Genome dynamics explain the evolution of flowering time CCT domain gene families in the Poaceae.
Zhao J., Huang X., Ouyang X., Chen W., Du A., Zhu L., Wang S., Deng X.W., Li S.
PLoS ONE 2012  7(8)  e43705
OsELF3-1, an Ortholog of Arabidopsis EARLY FLOWERING 3, Regulates Rice Circadian Rhythm and Photoperiodic Flowering.
Izawa T. , Mihara M. , Suzuki Y. , Gupta M. , Itoh H. , Nagano A.J. , Motoyama R. , Sawada Y. , Yano M. , Hirai M.Y. , Makino A. , Nagamura Y.
Plant Cell 2011  23(5)  1741-55
Os-GIGANTEA Confers Robust Diurnal Rhythms on the Global Transcriptome of Rice in the Field.
Shibaya T., Nonoue Y., Ono N., Yamanouchi U., Hori K., Yano M.
Theor. Appl. Genet. 2011  123(7)  1133-43
Genetic interactions involved in the inhibition of heading by heading date QTL, Hd2 in rice under long-day conditions.
Wang W., Liu Z., Guo Z., Song G., Cheng Q., Jiang D., Zhu Y., Yang D.
BMC Genomics 2011  12  462
Comparative transcriptomes profiling of photoperiod-sensitive male sterile rice Nongken 58S during the male sterility transition between short-day and long-day.
Ebana K,Shibaya T,Wu J,Matsubara K,Kanamori H,Yamane H,Yamanouchi U,Mizubayashi T,Kono I,Shomura A,Ito S,Ando T,Hori K,Matsumoto T,Yano M
Theor. Appl. Genet. 2011  122(6)  1199-210
Uncovering of major genetic factors generating naturally occurring variation in heading date among Asian rice cultivars.
Murakami M, Tago Y, Yamashino T, Mizuno T.
Plant Cell Physiol. 2007  48(1)  110-21
Comparative Overviews of Clock-Associated Genes of Arabidopsis thaliana and Oryza sativa.
Uga Y, Nonoue Y, Liang ZW, Lin HX, Yamamoto S, Yamanouchi U, Yano M.
Theor. Appl. Genet. 2007  114  1457-66
Accumulation of additive effects generates a strong photoperiod sensitivity in the extremely late-heading rice cultivar 'Nona Bokra'.
Pareek A, Singh A, Kumar M, Kushwaha HR, Lynn AM, Singla-Pareek SL.
Plant Physiol. 2006  142(2)  380-97
Whole-genome analysis of Oryza sativa reveals similar architecture of two-component signaling machinery with Arabidopsis.
Nakagawa, H., J. Yamagishi, N. Miyamoto, M. Motoyama, M. Yano and K. Nemoto
Theor. Appl. Genet. 2005  110 (4)  778-786
Flowering response of rice to photoperiod and temperature: a QTL analysis using a phenological model.
Murakami,M., Matsushika,A., Ashikari,M., Yamashino,T. and Mizuno,T.
Biosci. Biotechnol. Biochem. 2005  69(2)  410-414
Circadian-Associated Rice Pseudo Response Regulators (OsPRRs): Insight into the Control of Flowering Time.
Murakami,M., Ashikari,M., Miura,K., Yamashino,T. and Mizuno,T.
Plant Cell Physiol. 2003  44(11)  1229-1236
The evolutionarily conserved OsPRR quintet: rice pseudo-response regulators implicated in circadian rhythm.
Yano, M., Kojima, S., Takahashi, Y, Lin, H. and Sasaki, T.
Plant Physiol. 2001  127  1425-1429
Genetic control of flowering time in rice, a short-day plant.
Lin, H.X., T. Yamamoto, T. Sasaki and M. Yano
Theor. Appl. Genet. 2000  101  1021-1028
Characterization and detection of epistatic interactions of 3 QTLs, Hd1, Hd2, and Hd3, controlling heading date in rice using nearly isogenic lines.
Yamamoto, T., Y. Kuboki, S.Y. Lin, T. Sasaki and M. Yano
Theor. Appl. Genet. 1998  97  37-44.
Fine mapping of quantitative trait loci Hd-1, Hd-2 and Hd-3, controlloing heading date of rice, as single Mendelian factors.
Yano, M., Y. Harushima, Y. Nagamura, N. Kurata, Y. Minobe and T. Sasaki
Theor. Appl. Genet. 1997  95  1025-1032.
Identification of quantitative trait loci controlling heading date in rice using a high-density linkage map.
TextPresso Search Search textpresso for HD2 ( Recent references may be retrievable, but without any warranty )
DB Reference
Gramene ID -
Gene Ontology response to temperature stimulus( GO:0009266 )
negative regulation of growth( GO:0045926 )
DNA methylation on cytosine( GO:0032776 )
two-component response regulator activity( GO:0000156 )
nucleus( GO:0005634 )
transcription, DNA-dependent( GO:0006351 )
regulation of transcription, DNA-dependent( GO:0006355 )
circadian rhythm( GO:0007623 )
rhythmic process( GO:0048511 )
photoperiodism, flowering( GO:0048573 )
negative regulation of long-day photoperiodism, flowering( GO:0048579 )
Trait Ontology grain yield( TO:0000396 )
days to heading( TO:0000137 )
flowering time( TO:0002616 )
photoperiod sensitivity( TO:0000229 )
panicle length( TO:0000040 )
plant height( TO:0000207 )
growth and development trait( TO:0000357 )
starch content( TO:0000696 )
filled grain number( TO:0000447 )
temperature response trait( TO:0000432 )
Plant Ontology -
Related Strains
Phenotype images
Last updated
Dec 26, 2023