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.009G288000.5
Common NameB456_009G288000
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: 176aa    MW: 20509.5 Da    PI: 10.33
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G288000.5genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.99.6e-32959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fs++g+lyeys+
  Gorai.009G288000.5  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYSN 59
                        79***********************************************95 PP
2K-box106.92.4e-3577170497
               K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                         s+++ ++e +a+++qqe+akL+++i++Lq++ Rhl+G++L+sL++keL+qLe++Le+++++iRskK+e+ll++ie+ qk+e el++e  +L
  Gorai.009G288000.5  77 SNTNTVTEINAQYYQQESAKLRQQIQMLQNSSRHLMGDSLSSLTVKELKQLENRLERGITRIRSKKHEMLLAEIEYFQKREVELENESVCL 167
                         5556699************************************************************************************ PP

               K-box  95 rkk 97 
                         r+k
  Gorai.009G288000.5 168 RAK 170
                         998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.95161IPR002100Transcription factor, MADS-box
SMARTSM004321.1E-41160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.88E-33283IPR002100Transcription factor, MADS-box
CDDcd002658.35E-42275No hitNo description
PRINTSPR004045.5E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.1E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004045.5E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004045.5E-333859IPR002100Transcription factor, MADS-box
PfamPF014866.2E-2686170IPR002487Transcription factor, K-box
PROSITE profilePS5129714.36587175IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0090376Biological Processseed trichome differentiation
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
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: 176 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFST RGRLYEYSNN  60
NIRSTIERYK KACSGTSNTN TVTEINAQYY QQESAKLRQQ IQMLQNSSRH LMGDSLSSLT  120
VKELKQLENR LERGITRIRS KKHEMLLAEI EYFQKREVEL ENESVCLRAK NRLQR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A1e-21182183MEF2 CHIMERA
6bz1_B1e-21182183MEF2 CHIMERA
6bz1_C1e-21182183MEF2 CHIMERA
6bz1_D1e-21182183MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in flowers and seeds (Ref.1). Expressed in endotesta cell layer of developing seeds (PubMed:28369525). {ECO:0000269|PubMed:28369525, ECO:0000269|Ref.1}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in seed development. {ECO:0000269|PubMed:29853599}.
UniProtProbable transcription factor involved in seed development (PubMed:21447172, Ref.1, PubMed:29853599). Plays a role in seed morphogenesis by promoting the correct development of endotesta cell layer, which directs the further development of the seed coat, the endosperm, and consequently the embryo (Ref.1, PubMed:29853599). {ECO:0000269|PubMed:21447172, ECO:0000269|PubMed:29853599, ECO:0000269|Ref.1}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1905480.0EF190548.1 Gossypium hirsutum MADS-box protein MADS5 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001314587.11e-120agamous-like MADS-box protein AGL11
RefseqXP_012447615.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_012447617.11e-119PREDICTED: agamous-like MADS-box protein AGL11 isoform X3
RefseqXP_012447620.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X6
RefseqXP_012447621.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X6
RefseqXP_016686909.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016686910.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016686911.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X2
RefseqXP_016686914.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X2
RefseqXP_016748505.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016748506.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016748507.11e-120PREDICTED: agamous-like MADS-box protein AGL11 isoform X2
SwissprotA0A217EJJ01e-106AG11S_VITVI; Agamous-like MADS-box protein AGL11
SwissprotF6I4571e-106AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0D2TWW01e-122A0A0D2TWW0_GOSRA; Uncharacterized protein
STRINGGorai.009G288000.11e-119(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-103MIKC_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. Mejía N, et al.
    Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine.
    BMC Plant Biol., 2011. 11: p. 57
    [PMID:21447172]
  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]
  6. Malabarba J, et al.
    The MADS-box gene Agamous-like 11 is essential for seed morphogenesis in grapevine.
    J. Exp. Bot., 2017. 68(7): p. 1493-1506
    [PMID:28369525]
  7. Royo C, et al.
    The Major Origin of Seedless Grapes Is Associated with a Missense Mutation in the MADS-Box Gene VviAGL11.
    Plant Physiol., 2018. 177(3): p. 1234-1253
    [PMID:29853599]