PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc06g073640.2.1
Common NameLOC100037512
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family MYB
Protein Properties Length: 505aa    MW: 55210.4 Da    PI: 5.6655
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc06g073640.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding56.18.3e-183986148
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                        +g+WT  Ed +lv++v+++G g+W+++ ++ g+ R++k+c++rw ++l
  Solyc06g073640.2.1 39 KGPWTSAEDAILVEYVTKHGEGNWNAVQKHSGLARCGKSCRLRWANHL 86
                        79******************************************9986 PP

2Myb_DNA-binding49.41.1e-1592135146
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                         +g++T+eE+  ++++++++G++ W++ a++++ gRt++++k++w++
  Solyc06g073640.2.1  92 KGAFTPEEERHIIELHAKMGNK-WARMAAELP-GRTDNEIKNYWNT 135
                         799*******************.*********.***********96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.9393486IPR017930Myb domain
SuperFamilySSF466892.73E-3036133IPR009057Homeodomain-like
SMARTSM007171.7E-133888IPR001005SANT/Myb domain
PfamPF002493.7E-153986IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.6E-244093IPR009057Homeodomain-like
CDDcd001674.56E-114186No hitNo description
PROSITE profilePS5129425.18487141IPR017930Myb domain
SMARTSM007173.6E-1591139IPR001005SANT/Myb domain
PfamPF002497.6E-1592135IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.2E-2594140IPR009057Homeodomain-like
CDDcd001674.06E-1194135No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009723Biological Processresponse to ethylene
GO:0009751Biological Processresponse to salicylic acid
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:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 505 aa     Download sequence    Send to blast
MSMTSESDDR MTSQDGVDSP SAEEACGGGN TGGGLPLKKG PWTSAEDAIL VEYVTKHGEG  60
NWNAVQKHSG LARCGKSCRL RWANHLRPDL KKGAFTPEEE RHIIELHAKM GNKWARMAAE  120
LPGRTDNEIK NYWNTRIKRR QRAGLPIYPS DICFQSITEN KQNEELGTFS SADSQYPDFF  180
PMNYEIPAVE FKRLEFNQHL CPPALLDIPT GGILDIPGRS LLAQGLNSAY YSRSFLSTTP  240
PAKRIRGSES LFSGLNGDCS PSKNDVSFST CHQHQDDGSL LAQSMGFSSS FNQNLTSDYH  300
PSSLGVIPGS HALLNGHTSS SEPSWAKKLE LPSLQSTIAS WGLVTSPLPS LDSVDTLIQS  360
PPTEHTESCN LSPRNSGLLD AVLHESQTMK ASKSILHQEN SGDVVDNSCP DLHMTEWGQH  420
GDPISPLGHS AASVFSEYTP TSGSSSEEPQ LVTMPACKVK QEKFDYGPYD GKDDASNLIC  480
PRPDFLLESN CFGHMQNTVR SIWY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-32341401107B-MYB
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.193240.0callus
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. {ECO:0000269|PubMed:9150608}.
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
MP00348DAPTransfer from AT3G11440Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc06g073640.2.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By gibberellin in aleurone cells. {ECO:0000269|PubMed:14688295}.
UniProtINDUCTION: By gibberellin in aleurone cells. {ECO:0000269|PubMed:9150608}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1754750.0Solanum lycopersicum GAMYB-like2 mRNA, complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010322306.10.0GAMYB-like2 isoform X1
SwissprotA2WW871e-100GAM1_ORYSI; Transcription factor GAMYB
SwissprotQ0JIC21e-100GAMYB_ORYSJ; Transcription factor GAMYB
TrEMBLA0A3Q7H2U60.0A0A3Q7H2U6_SOLLC; Uncharacterized protein
STRINGSolyc06g073640.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA20212358
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G11440.14e-80myb domain protein 65
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. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  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. Gong X,Bewley DJ
    A GAMYB-like gene in tomato and its expression during seed germination.
    Planta, 2008. 228(4): p. 563-72
    [PMID:18542997]
  13. 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]
  14. 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]
  15. 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]
  16. 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]
  17. 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]
  18. 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]
  19. 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]
  20. 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]
  21. 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]
  22. 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]
  23. 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]
  24. 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]
  25. 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]