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.012G185500.1
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: 211aa    MW: 24221.6 Da    PI: 8.6095
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G185500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.72.3e-31959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krienk+nrqvtfskRr+g+lKKA+E+SvLCdaeva+i+fs++gkl+eys+
  Gorai.012G185500.1  9 KRIENKINRQVTFSKRRAGLLKKAHEISVLCDAEVALIVFSHKGKLFEYST 59
                        79***********************************************96 PP
2K-box85.88.7e-296613630100
               K-box  30 nLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                          L+r  Rh++GedL+sLslkeLq+LeqqL++++k+iRskKn+l+ e+i+elq+kek++qe+n +L k+++e
  Gorai.012G185500.1  66 ILERYERHYMGEDLDSLSLKELQNLEQQLDTAIKHIRSKKNQLISESISELQRKEKAIQEQNAMLAKQIKE 136
                         689999**************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.352161IPR002100Transcription factor, MADS-box
SMARTSM004329.2E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.14E-32275IPR002100Transcription factor, MADS-box
CDDcd002658.06E-42273No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004043.8E-31323IPR002100Transcription factor, MADS-box
PfamPF003195.9E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004043.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004043.8E-313859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.60650140IPR002487Transcription factor, K-box
PfamPF014861.5E-2367134IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 211 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRAGLLK KAHEISVLCD AEVALIVFSH KGKLFEYSTD  60
SCMEKILERY ERHYMGEDLD SLSLKELQNL EQQLDTAIKH IRSKKNQLIS ESISELQRKE  120
KAIQEQNAML AKQIKEREKT VAQAQQSQWG QHQQQLGLNT STSFLLPQPP HPCLNIGGTY  180
QEEATDQVRR NELDLTLEPI YTCHLGYFAA *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-21173172MEF2C
5f28_B2e-21173172MEF2C
5f28_C2e-21173172MEF2C
5f28_D2e-21173172MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in tendrils and flowers. {ECO:0000269|PubMed:15247405}.
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
GenBankKC1556370.0KC155637.1 Gossypium hirsutum MADS box protein MADS42 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001313787.11e-136truncated transcription factor CAULIFLOWER A-like
RefseqXP_016679746.11e-136PREDICTED: truncated transcription factor CAULIFLOWER A-like isoform X1
RefseqXP_016679747.11e-136PREDICTED: truncated transcription factor CAULIFLOWER A-like isoform X1
SwissprotQ6E6S71e-107AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLU5L2F41e-135U5L2F4_GOSHI; MADS box protein MADS42
STRINGGorai.012G185500.11e-155(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.11e-97MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. 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]
  3. 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]