PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.012G042600.4
Common NameB456_012G042600, LOC105780473
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family MIKC_MADS
Protein Properties Length: 221aa    MW: 25286.8 Da    PI: 9.9787
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G042600.4genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.51.3e-312473150
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  Gorai.012G042600.4 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 73
                        79***********************************************8 PP
2K-box90.53.1e-3093184596
               K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 
                         +  s++ea+ + +qqe++kL+++i+  q+ +Rh+lGe L+sL++keL++Le +Lek++ +iRskKnell+++i  +qk+  e+++++++ +
  Gorai.012G042600.4  93 TPGSVAEANIQFYQQEATKLRRQIRDVQNMNRHILGEALSSLTFKELKNLEGRLEKGICRIRSKKNELLFAEIGFMQKRIAENERAQQQSN 183
                         445699*************************************************************************999988887755 PP

               K-box  96 k 96 
                         +
  Gorai.012G042600.4 184 Q 184
                         4 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-421675IPR002100Transcription factor, MADS-box
PROSITE profilePS5006634.1321676IPR002100Transcription factor, MADS-box
CDDcd002656.84E-451790No hitNo description
SuperFamilySSF554555.1E-331788IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-331838IPR002100Transcription factor, MADS-box
PfamPF003197.6E-272572IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-333853IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-335374IPR002100Transcription factor, MADS-box
PfamPF014863.6E-21101185IPR002487Transcription factor, K-box
PROSITE profilePS5129713.092102188IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0090376Biological Processseed trichome differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 221 aa     Download sequence    Send to blast
MEFPNLDPES SSQKKMGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
IVFSSRGRLY EYANNSVRAT IERYKKACSD ATTPGSVAEA NIQFYQQEAT KLRRQIRDVQ  120
NMNRHILGEA LSSLTFKELK NLEGRLEKGI CRIRSKKNEL LFAEIGFMQK RIAENERAQQ  180
QSNQLMQAAS SYNRNFLPVN LLEPSNNDYS NQDQTPLQLV *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-211684169Myocyte-specific enhancer factor 2B
1tqe_Q4e-211684169Myocyte-specific enhancer factor 2B
1tqe_R4e-211684169Myocyte-specific enhancer factor 2B
1tqe_S4e-211684169Myocyte-specific enhancer factor 2B
5f28_A5e-211684169MEF2C
5f28_B5e-211684169MEF2C
5f28_C5e-211684169MEF2C
5f28_D5e-211684169MEF2C
6byy_A6e-211684169MEF2 CHIMERA
6byy_B6e-211684169MEF2 CHIMERA
6byy_C6e-211684169MEF2 CHIMERA
6byy_D6e-211684169MEF2 CHIMERA
6c9l_A4e-211684169Myocyte-specific enhancer factor 2B
6c9l_B4e-211684169Myocyte-specific enhancer factor 2B
6c9l_C4e-211684169Myocyte-specific enhancer factor 2B
6c9l_D4e-211684169Myocyte-specific enhancer factor 2B
6c9l_E4e-211684169Myocyte-specific enhancer factor 2B
6c9l_F4e-211684169Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in flowers and seeds. {ECO:0000269|PubMed:11414613}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF2020910.0EF202091.1 Gossypium hirsutum MADS-box protein MADS7 mRNA, complete cds, alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012460288.11e-161PREDICTED: agamous-like MADS-box protein AGL1 isoform X2
SwissprotQ93XH41e-113MADS1_VITVI; Agamous-like MADS-box protein MADS1
TrEMBLA0A0D2VUZ11e-160A0A0D2VUZ1_GOSRA; Uncharacterized protein
STRINGGorai.012G042600.11e-155(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58780.11e-113MIKC_MADS family protein
Publications ? help Back to Top
  1. Boss PK,Vivier M,Matsumoto S,Dry IB,Thomas MR
    A cDNA from grapevine (Vitis vinifera L.), which shows homology to AGAMOUS and SHATTERPROOF, is not only expressed in flowers but also throughout berry development.
    Plant Mol. Biol., 2001. 45(5): p. 541-53
    [PMID:11414613]
  2. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  3. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  4. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  5. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]