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.009G288000.12
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: 158aa    MW: 18328.2 Da    PI: 10.5886
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G288000.12genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF100.27.8e-32959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fs++g+lyeys+
  Gorai.009G288000.12  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYSN 59
                         79***********************************************95 PP
2K-box86.36.2e-2977150477
                K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqi 77 
                          s+++ ++e +a+++qqe+akL+++i++Lq++ Rhl+G++L+sL++keL+qLe++Le+++++iRskK ++++ +i
  Gorai.009G288000.12  77 SNTNTVTEINAQYYQQESAKLRQQIQMLQNSSRHLMGDSLSSLTVKELKQLENRLERGITRIRSKKVNIYIPMI 150
                          5556699***********************************************************98876655 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
CDDcd002651.56E-42275No hitNo description
SuperFamilySSF554552.22E-33283IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003198.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004044.3E-333859IPR002100Transcription factor, MADS-box
PfamPF014863.5E-2186147IPR002487Transcription factor, K-box
PROSITE profilePS5129711.14887157IPR002487Transcription 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: 158 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFST RGRLYEYSNN  60
NIRSTIERYK KACSGTSNTN TVTEINAQYY QQESAKLRQQ IQMLQNSSRH LMGDSLSSLT  120
VKELKQLENR LERGITRIRS KKVNIYIPMI HFHFHLI*
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_001314587.14e-98agamous-like MADS-box protein AGL11
RefseqXP_012447615.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_012447620.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X6
RefseqXP_012447621.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X6
RefseqXP_016686909.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016686910.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016686911.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X2
RefseqXP_016686914.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X2
RefseqXP_016748505.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016748506.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_016748507.14e-98PREDICTED: agamous-like MADS-box protein AGL11 isoform X2
SwissprotA0A217EJJ03e-89AG11S_VITVI; Agamous-like MADS-box protein AGL11
SwissprotF6I4574e-89AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0D2TWV81e-111A0A0D2TWV8_GOSRA; Uncharacterized protein
STRINGGorai.009G288000.11e-96(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.26e-90MIKC_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]