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.009G288000.9
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: 282aa    MW: 32681.8 Da    PI: 10.2407
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G288000.9genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.82.2e-3166116151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                         krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fs++g+lyeys+
  Gorai.009G288000.9  66 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSTRGRLYEYSN 116
                         79***********************************************95 PP
2K-box109.43.9e-361342304100
               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.009G288000.9 134 SNTNTVTEINAQYYQQESAKLRQQIQMLQNSSRHLMGDSLSSLTVKELKQLENRLERGITRIRSKKHEMLLAEIEYFQKREVELENESVCL 224
                         5556699************************************************************************************ PP

               K-box  95 rkklee 100
                         r+k++e
  Gorai.009G288000.9 225 RAKIAE 230
                         ***986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.9558118IPR002100Transcription factor, MADS-box
SMARTSM004321.1E-4158117IPR002100Transcription factor, MADS-box
CDDcd002651.58E-4159132No hitNo description
SuperFamilySSF554559.16E-3359139IPR002100Transcription factor, MADS-box
PROSITE patternPS00350060114IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-326080IPR002100Transcription factor, MADS-box
PfamPF003192.5E-2667114IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-328095IPR002100Transcription factor, MADS-box
PRINTSPR004041.6E-3295116IPR002100Transcription factor, MADS-box
PfamPF014863.4E-26143228IPR002487Transcription factor, K-box
PROSITE profilePS5129715.115144234IPR002487Transcription 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: 282 aa     Download sequence    Send to blast
MKKISFPSII THKTPLPTTT KKTYDGVFFI FQTKFFFRGC WFFFSLITII GIYKRVKMGR  60
GKIEIKRIEN TTNRQVTFCK RRNGLLKKAY ELSVLCDAEV ALIVFSTRGR LYEYSNNNIR  120
STIERYKKAC SGTSNTNTVT EINAQYYQQE SAKLRQQIQM LQNSSRHLMG DSLSSLTVKE  180
LKQLENRLER GITRIRSKKH EMLLAEIEYF QKREVELENE SVCLRAKIAE IERVEEANMV  240
TGEELNAIQA LASRNFFTPN VIERGTPTPY SHHDKKILHL G*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A5e-2058139183MEF2 CHIMERA
6bz1_B5e-2058139183MEF2 CHIMERA
6bz1_C5e-2058139183MEF2 CHIMERA
6bz1_D5e-2058139183MEF2 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_012447616.10.0PREDICTED: agamous-like MADS-box protein AGL11 isoform X2
SwissprotF6I4571e-132AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0D2S9Z10.0A0A0D2S9Z1_GOSRA; Uncharacterized protein
STRINGGorai.009G288000.11e-179(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.31e-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]