PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID LOC_Os01g59660.4
Common NameGAM1, LOC4327362, Os01g0812000, OsJ_003732, P0425G02.18-1, P0425G02.18-2
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family MYB
Protein Properties Length: 528aa    MW: 57109.5 Da    PI: 5.0094
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os01g59660.4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding52.61.1e-164289148
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                      +g+WT  Ed +lvd+vk++G g+W+++ +  g+ R++k+c++rw ++l
  LOC_Os01g59660.4 42 KGPWTSAEDAILVDYVKKHGEGNWNAVQKNTGLFRCGKSCRLRWANHL 89
                      79******************************************9986 PP

2Myb_DNA-binding513.2e-1695138146
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
   Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                       +g++T+eE+ l+++++ ++G++ W++ a++++ gRt++++k++w++
  LOC_Os01g59660.4  95 KGAFTAEEERLIIQLHSKMGNK-WARMAAHLP-GRTDNEIKNYWNT 138
                       799*******************.*********.***********96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.6253789IPR017930Myb domain
SuperFamilySSF466897.11E-3139136IPR009057Homeodomain-like
SMARTSM007172.1E-144191IPR001005SANT/Myb domain
PfamPF002491.0E-144289IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.4E-234396IPR009057Homeodomain-like
CDDcd001672.46E-114489No hitNo description
PROSITE profilePS5129425.02690144IPR017930Myb domain
SMARTSM007176.3E-1794142IPR001005SANT/Myb domain
PfamPF002493.5E-1595138IPR001005SANT/Myb domain
CDDcd001672.01E-1297138No hitNo description
Gene3DG3DSA:1.10.10.601.6E-2597142IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009789Biological Processpositive regulation of abscisic acid-activated signaling pathway
GO:0009908Biological Processflower development
GO:0043068Biological Processpositive regulation of programmed cell death
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0045926Biological Processnegative regulation of growth
GO:0048235Biological Processpollen sperm cell differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009066anatomyanther
PO:0001004developmental stageanther development stage
PO:0007130developmental stagesporophyte reproductive stage
Sequence ? help Back to Top
Protein Sequence    Length: 528 aa     Download sequence    Send to blast
MYRVKSESDC DMIHQEQMDS PVADDGSSGG SPHRGGGPPL KKGPWTSAED AILVDYVKKH  60
GEGNWNAVQK NTGLFRCGKS CRLRWANHLR PNLKKGAFTA EEERLIIQLH SKMGNKWARM  120
AAHLPGRTDN EIKNYWNTRI KRCQRAGLPI YPTSVCNQSS NEDQQCSSDF DCGENLSNDL  180
LNANAVSISN LLGQSFASKS CSFMDQVNQT GMLKQSDGVL PGLSDTINGV ISSVDQFSND  240
SEKLKQAVGF DYLHEANSTS KIIAPFGGAL NGSHAFLNGN FSASRPTSGP LKMELPSLQD  300
TESDPNSWLK YTVAPALQPT ELVDPYLQSP AATPSVKSEC ASPRNSGLLE ELIHEAQTLR  360
SGKNQQTSVI SSSSSVGTPC NTTVLSPEFD MCQEYWEEQH PGPFLNDCAP FSGNSFTEST  420
PPVSAASPDI FQLSKVSPAQ STSMGSGEQV MGPKYEPGDT SPHPENFRPD ALFSGNTADP  480
SVFNNAIAML LGNDLSIDCR PVLGDGIMFN SSSWSNMPHA CEMSEFK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-32361421106B-MYB
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.26980.0callus| flower| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329739690.0
Expression AtlasQ0JIC2-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the epithelial layer of the embryo in germinating seed (PubMed:14688295). Expressed in anthers of developing flowers during meiosis, tapetal cell death stage, young microspore stage and vacuolated pollen stage (PubMed:19454733). {ECO:0000269|PubMed:14688295, ECO:0000269|PubMed:19454733}.
UniprotTISSUE SPECIFICITY: Expressed in aleurone cells, inflorescence shoot apical region, stamen primordia, and tapetum cells of the anther. Expressed at low level in roots and vegetative shoots. {ECO:0000269|PubMed:14688295}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator of gibberellin-dependent alpha-amylase expression in aleurone cells. Involved in pollen and floral organs development. May bind to the 5'-TAACAAA-3' box of alpha-amylase promoter. Required for anther development (PubMed:19454733, PubMed:20590996). Functions in parallel with UDT1 to regulate early anther development. Functions upstream of the transcription factor TDR and may positively regulate its transcription (PubMed:20590996). Required for pollen development. Probably required for controlling tapetal cell size and promoting tapetal programmed cell death (PCD) during anther development. Required for exine and Ubisch body formation in anthers. Interacts with the DNA specific motifs of giberrellin-up-regulated genes of anthers and regulates their expression. Positively regulates the expression of the laurate hydroxylase CYP703A3, known to be essential for the development of pollen exine and anther epicuticular layer (PubMed:19454733). Functions with MYBS1 to integrate diverse nutrient starvation and gibberellin (GA) signaling pathways during germination of grains. Sugar, nitrogen and phosphate starvation signals converge and interconnect with GA to promote the co-nuclear import of GAMYB and MYBS1, resulting in the expression of a large set of GA-inducible hydrolases, transporters and regulators that are essential for mobilization of nutrient reserves in the endosperm to support seedling growth (PubMed:22773748). {ECO:0000269|PubMed:14688295, ECO:0000269|PubMed:19454733, ECO:0000269|PubMed:20590996, ECO:0000269|PubMed:22773748}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00490DAPTransfer from AT5G06100Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os01g59660.4
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By gibberellin in aleurone cells. {ECO:0000269|PubMed:14688295}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: Plants are not defective in root and leaf elongation, but present shortened internodes and defects in pollen and floral development. {ECO:0000269|PubMed:14688295}.
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs01g59660
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCT8308810.0CT830881.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA206M18, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015622335.10.0transcription factor GAMYB
RefseqXP_015622336.10.0transcription factor GAMYB
SwissprotQ0JIC20.0GAMYB_ORYSJ; Transcription factor GAMYB
TrEMBLA0A0D3EVB70.0A0A0D3EVB7_9ORYZ; Transcription factor
STRINGOS01T0812000-020.0(Oryza sativa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06100.32e-88myb domain protein 33
Publications ? help Back to Top
  1. Gocal GF, et al.
    Long-day up-regulation of a GAMYB gene during Lolium temulentum inflorescence formation.
    Plant Physiol., 1999. 119(4): p. 1271-8
    [PMID:10198085]
  2. Ueguchi-Tanaka M, et al.
    Rice dwarf mutant d1, which is defective in the alpha subunit of the heterotrimeric G protein, affects gibberellin signal transduction.
    Proc. Natl. Acad. Sci. U.S.A., 2000. 97(21): p. 11638-43
    [PMID:11027362]
  3. Sutoh K,Yamauchi D
    Two cis-acting elements necessary and sufficient for gibberellin-upregulated proteinase expression in rice seeds.
    Plant J., 2003. 34(5): p. 635-45
    [PMID:12787245]
  4. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  5. Washio K
    Functional dissections between GAMYB and Dof transcription factors suggest a role for protein-protein associations in the gibberellin-mediated expression of the RAmy1A gene in the rice aleurone.
    Plant Physiol., 2003. 133(2): p. 850-63
    [PMID:14500792]
  6. Kaneko M, et al.
    Loss-of-function mutations of the rice GAMYB gene impair alpha-amylase expression in aleurone and flower development.
    Plant Cell, 2004. 16(1): p. 33-44
    [PMID:14688295]
  7. Eastmond PJ,Jones RL
    Hormonal regulation of gluconeogenesis in cereal aleurone is strongly cultivar-dependent and gibberellin action involves SLENDER1 but not GAMYB.
    Plant J., 2005. 44(3): p. 483-93
    [PMID:16236157]
  8. Xie Z, et al.
    Interactions of two abscisic-acid induced WRKY genes in repressing gibberellin signaling in aleurone cells.
    Plant J., 2006. 46(2): p. 231-42
    [PMID:16623886]
  9. Tsuji H, et al.
    GAMYB controls different sets of genes and is differentially regulated by microRNA in aleurone cells and anthers.
    Plant J., 2006. 47(3): p. 427-44
    [PMID:16792694]
  10. Wang Y,Wang YF,Zhang DB
    [Identification of the rice (Oryza sativa L.) mutant msp1-4 and expression analysis of its UDT1 and GAMYB genes].
    Zhi Wu Sheng Li Yu Fen Zi Sheng Wu Xue Xue Bao, 2006. 32(5): p. 527-34
    [PMID:17075175]
  11. Liu SM,Wang ZY,Cai XL
    [Preliminary screening of target genes of rice transcription factor OsBP-73].
    Zhi Wu Sheng Li Yu Fen Zi Sheng Wu Xue Xue Bao, 2007. 33(5): p. 456-62
    [PMID:17960050]
  12. Aya K, et al.
    Gibberellin modulates anther development in rice via the transcriptional regulation of GAMYB.
    Plant Cell, 2009. 21(5): p. 1453-72
    [PMID:19454733]
  13. Hu L,Tan H,Liang W,Zhang D
    The Post-meiotic Deficicent Anther1 (PDA1) gene is required for post-meiotic anther development in rice.
    J Genet Genomics, 2010. 37(1): p. 37-46
    [PMID:20171576]
  14. Liu Z,Bao W,Liang W,Yin J,Zhang D
    Identification of gamyb-4 and analysis of the regulatory role of GAMYB in rice anther development.
    J Integr Plant Biol, 2010. 52(7): p. 670-8
    [PMID:20590996]
  15. Plackett AR,Thomas SG,Wilson ZA,Hedden P
    Gibberellin control of stamen development: a fertile field.
    Trends Plant Sci., 2011. 16(10): p. 568-78
    [PMID:21824801]
  16. Aya K, et al.
    The Gibberellin perception system evolved to regulate a pre-existing GAMYB-mediated system during land plant evolution.
    Nat Commun, 2011. 2: p. 544
    [PMID:22109518]
  17. Hong YF, et al.
    Convergent starvation signals and hormone crosstalk in regulating nutrient mobilization upon germination in cereals.
    Plant Cell, 2012. 24(7): p. 2857-73
    [PMID:22773748]
  18. Wang Y, et al.
    TamiR159 directed wheat TaGAMYB cleavage and its involvement in anther development and heat response.
    PLoS ONE, 2012. 7(11): p. e48445
    [PMID:23133634]
  19. Zhang Y, et al.
    GmGBP1, a homolog of human ski interacting protein in soybean, regulates flowering and stress tolerance in Arabidopsis.
    BMC Plant Biol., 2013. 13: p. 21
    [PMID:23388059]
  20. Zhang Y, et al.
    A GAMYB homologue CsGAMYB1 regulates sex expression of cucumber via an ethylene-independent pathway.
    J. Exp. Bot., 2014. 65(12): p. 3201-13
    [PMID:24790111]
  21. Yano K, et al.
    Comprehensive gene expression analysis of rice aleurone cells: probing the existence of an alternative gibberellin receptor.
    Plant Physiol., 2015. 167(2): p. 531-44
    [PMID:25511432]
  22. Sutoh K, et al.
    An N-terminal region of a Myb-like protein is involved in its intracellular localization and activation of a gibberellin-inducible proteinase gene in germinated rice seeds.
    Biosci. Biotechnol. Biochem., 2015. 79(5): p. 747-59
    [PMID:25559339]
  23. Kwon CT,Kim SH,Kim D,Paek NC
    The Rice Floral Repressor Early flowering1 Affects Spikelet Fertility By Modulating Gibberellin Signaling.
    Rice (N Y), 2015. 8(1): p. 58
    [PMID:26202549]
  24. Suzuki A, et al.
    Cloning and expression of five myb-related genes from rice seed.
    Gene, 1997. 198(1-2): p. 393-8
    [PMID:9370307]