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.009G265100.2
Common NameB456_009G265100, LOC105770656
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: 172aa    MW: 20006.9 Da    PI: 10.1635
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G265100.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF100.75.4e-32959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  Gorai.009G265100.2  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 59
                        79***********************************************95 PP
2K-box103.92.1e-3476170397
               K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                         +s+++ ++e +a+++qqe+akL+++i++Lq+++Rhl+G++L+sL++keL+q+e++Le+++++iRskK+e+ll++ie lqk+e el++e  +
  Gorai.009G265100.2  76 TSNTNTVTEINAQYYQQESAKLRQQIQMLQNSNRHLMGDSLSSLTVKELKQVENRLERGITRIRSKKHEMLLAEIEFLQKREIELENESVC 166
                         5566669************************************************************************************ PP

               K-box  94 Lrkk 97 
                         Lr+k
  Gorai.009G265100.2 167 LRTK 170
                         *987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006634.118161IPR002100Transcription factor, MADS-box
SMARTSM004321.3E-42160IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.11E-33278IPR002100Transcription factor, MADS-box
CDDcd002652.35E-42275No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-33323IPR002100Transcription factor, MADS-box
PfamPF003194.8E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-333859IPR002100Transcription factor, MADS-box
PfamPF014865.7E-2586170IPR002487Transcription factor, K-box
PROSITE profilePS5129714.60387171IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
GO:0090376Biological Processseed trichome differentiation
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: 172 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFSS RGRLYEYSNN  60
NIRSTIDRYK KACSDTSNTN TVTEINAQYY QQESAKLRQQ IQMLQNSNRH LMGDSLSSLT  120
VKELKQVENR LERGITRIRS KKHEMLLAEI EFLQKREIEL ENESVCLRTK K*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A6e-22182183MEF2 CHIMERA
6bz1_B6e-22182183MEF2 CHIMERA
6bz1_C6e-22182183MEF2 CHIMERA
6bz1_D6e-22182183MEF2 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
GenBankAF5389660.0AF538966.1 Gossypium hirsutum MADS box protein GHMADS-2 (MADS-2) mRNA, complete cds.
GenBankEF2020900.0EF202090.1 Gossypium hirsutum MADS-box protein MADS6 mRNA, complete cds.
GenBankFJ1980490.0FJ198049.1 Gossypium barbadense agamous-like protein 1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001314025.11e-120agamous-like MADS-box protein AGL11
RefseqXP_012447415.11e-120PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_012447416.11e-120PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_017634765.11e-120PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_017634766.11e-120PREDICTED: agamous-like MADS-box protein AGL11
SwissprotA0A217EJJ01e-110AG11S_VITVI; Agamous-like MADS-box protein AGL11
SwissprotF6I4571e-110AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0B0PQI51e-119A0A0B0PQI5_GOSAR; Uncharacterized protein
TrEMBLA0A0D2QNH61e-120A0A0D2QNH6_GOSRA; Uncharacterized protein
TrEMBLA0A0D2TS161e-119A0A0D2TS16_GOSRA; Uncharacterized protein
TrEMBLB6E2S51e-119B6E2S5_GOSBA; Agamous-like protein 1
TrEMBLQ8H6F81e-119Q8H6F8_GOSHI; MADS box protein GHMADS-2
STRINGGorai.009G265100.11e-120(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-106MIKC_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]