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.009G265100.1
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: 224aa    MW: 25715.4 Da    PI: 9.8566
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.009G265100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF100.18.7e-32959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyeys+
  Gorai.009G265100.1  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYSN 59
                        79***********************************************95 PP
2K-box107.21.9e-35761733100
               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.009G265100.1  76 TSNTNTVTEINAQYYQQESAKLRQQIQMLQNSNRHLMGDSLSSLTVKELKQVENRLERGITRIRSKKHEMLLAEIEFLQKREIELENESVC 166
                         5566669************************************************************************************ PP

               K-box  94 Lrkklee 100
                         Lr+k++e
  Gorai.009G265100.1 167 LRTKIAE 173
                         ****986 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
SuperFamilySSF554552.22E-33278IPR002100Transcription factor, MADS-box
CDDcd002653.51E-43275No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-33323IPR002100Transcription factor, MADS-box
PfamPF003197.8E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-333859IPR002100Transcription factor, MADS-box
PfamPF014861.4E-2586171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.24487177IPR002487Transcription 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: 224 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 IAEIERLQQA  180
NMVTGPELNA IQALASRNFF SPNVIEHPSA YSHPSDKKIL HLG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A3e-21182183MEF2 CHIMERA
6bz1_B3e-21182183MEF2 CHIMERA
6bz1_C3e-21182183MEF2 CHIMERA
6bz1_D3e-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
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-164agamous-like MADS-box protein AGL11
RefseqXP_012447415.11e-164PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_012447416.11e-164PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_017634765.11e-164PREDICTED: agamous-like MADS-box protein AGL11
RefseqXP_017634766.11e-164PREDICTED: agamous-like MADS-box protein AGL11
SwissprotF6I4571e-138AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A0B0PQI51e-163A0A0B0PQI5_GOSAR; Uncharacterized protein
TrEMBLA0A0D2TS161e-163A0A0D2TS16_GOSRA; Uncharacterized protein
TrEMBLB6E2S51e-163B6E2S5_GOSBA; Agamous-like protein 1
TrEMBLQ8H6F81e-163Q8H6F8_GOSHI; MADS box protein GHMADS-2
STRINGGorai.009G265100.11e-163(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM49942234
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-125MIKC_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]