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.013G096100.1
Common NameB456_013G096100, LOC105784488
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: 246aa    MW: 28602.6 Da    PI: 8.4533
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G096100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.46.1e-31959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krienk+nrqvtfskRr+g+lKKA+E+S+LCdaeva+i+fs++gkl+eys+
  Gorai.013G096100.1  9 KRIENKINRQVTFSKRRAGLLKKAHEISILCDAEVALIVFSHKGKLFEYST 59
                        79***********************************************96 PP
2K-box106.14.3e-35761742100
               K-box   2 qkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenk 92 
                         ++++ +++e + + +++ ++++Lk+++e Lqr++Rh++Ge+LesLslkeLq+LeqqL+++lk iRskKn+l++e+i+elq+kek++qe+n+
  Gorai.013G096100.1  76 AERQLVATEPESQGNWSMDYNRLKAKVELLQRNHRHYMGEELESLSLKELQNLEQQLDTALKLIRSKKNQLMYESISELQRKEKAIQEQNT 166
                         56667777778889***************************************************************************** PP

               K-box  93 aLrkklee 100
                         +L k+++e
  Gorai.013G096100.1 167 MLAKQIKE 174
                         *****986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.1E-40160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.17161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.83E-34291IPR002100Transcription factor, MADS-box
CDDcd002653.50E-42279No hitNo description
PRINTSPR004047.8E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003198.3E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-313859IPR002100Transcription factor, MADS-box
PfamPF014865.2E-2986172IPR002487Transcription factor, K-box
PROSITE profilePS5129717.13588178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009933Biological Processmeristem structural organization
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 246 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRAGLLK KAHEISILCD AEVALIVFSH KGKLFEYSTD  60
SCMEKILERY ERYSYAERQL VATEPESQGN WSMDYNRLKA KVELLQRNHR HYMGEELESL  120
SLKELQNLEQ QLDTALKLIR SKKNQLMYES ISELQRKEKA IQEQNTMLAK QIKEREKTVA  180
QQQQQQPQWG QQDHGLNTSS FLLPQPPPCL NIGGTYQEEA TEMRRNELDL TLEPIYSCHL  240
GCFAA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A9e-22174173MEF2 CHIMERA
6byy_B9e-22174173MEF2 CHIMERA
6byy_C9e-22174173MEF2 CHIMERA
6byy_D9e-22174173MEF2 CHIMERA
6bz1_A8e-22174173MEF2 CHIMERA
6bz1_B8e-22174173MEF2 CHIMERA
6bz1_C8e-22174173MEF2 CHIMERA
6bz1_D8e-22174173MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in tendrils and flowers. {ECO:0000269|PubMed:15247405}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00096ChIP-seqTransfer from AT1G69120Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC1556360.0KC155636.1 Gossypium hirsutum MADS box protein MADS41 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001313746.10.0truncated transcription factor CAULIFLOWER A-like
RefseqXP_012465848.10.0PREDICTED: truncated transcription factor CAULIFLOWER A-like
SwissprotQ6E6S71e-149AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A0D2VCZ20.0A0A0D2VCZ2_GOSRA; Uncharacterized protein
TrEMBLU5L3160.0U5L316_GOSHI; MADS box protein MADS41
STRINGGorai.013G096100.10.0(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69120.11e-116MIKC_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. 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]
  4. 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]