PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Gorai.009G288000.8
Common NameB456_009G288000, LOC105770812
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: 225aa    MW: 25882.6 Da    PI: 9.675
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G288000.8genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.31.5e-31959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fs++g+lyeys+
  Gorai.009G288000.8  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYSN 59
                        79***********************************************95 PP
2K-box110.12.4e-36771734100
               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.009G288000.8  77 SNTNTVTEINAQYYQQESAKLRQQIQMLQNSSRHLMGDSLSSLTVKELKQLENRLERGITRIRSKKHEMLLAEIEYFQKREVELENESVCL 167
                         5556699************************************************************************************ PP

               K-box  95 rkklee 100
                         r+k++e
  Gorai.009G288000.8 168 RAKIAE 173
                         ***986 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
SuperFamilySSF554555.62E-33282IPR002100Transcription factor, MADS-box
CDDcd002651.38E-42275No hitNo description
PRINTSPR004049.5E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.7E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004049.5E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004049.5E-333859IPR002100Transcription factor, MADS-box
PfamPF014862.1E-2686171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.11587177IPR002487Transcription 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: 225 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 IAEIERVEEA  180
NMVTGEELNA IQALASRNFF TPNVIERGTP TPYSHHDKKI LHLG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A6e-21182183MEF2 CHIMERA
6bz1_B6e-21182183MEF2 CHIMERA
6bz1_C6e-21182183MEF2 CHIMERA
6bz1_D6e-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 (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
RefseqXP_012447615.11e-164PREDICTED: agamous-like MADS-box protein AGL11 isoform X1
RefseqXP_012447617.11e-164PREDICTED: agamous-like MADS-box protein AGL11 isoform X3
RefseqXP_012447620.11e-164PREDICTED: agamous-like MADS-box protein AGL11 isoform X6
RefseqXP_012447621.11e-164PREDICTED: agamous-like MADS-box protein AGL11 isoform X6
SwissprotF6I4571e-133AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0D2QPZ01e-163A0A0D2QPZ0_GOSRA; Uncharacterized protein
TrEMBLA0A0D2TWW51e-162A0A0D2TWW5_GOSRA; Uncharacterized protein
STRINGGorai.009G288000.11e-163(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-120MIKC_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]