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.012G180300.2
Common NameB456_012G180300, LOC105780435
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: 247aa    MW: 28157 Da    PI: 9.044
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G180300.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.81.1e-31959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krienk+nrqvtf+kRrng+lKKA+ELSvLCdaeva+iifs++gklye++s
  Gorai.012G180300.2  9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSNRGKLYEFCS 59
                        79***********************************************96 PP
2K-box90.72.6e-30901751499
               K-box  14 aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                         + s++qe+ kLk++++ Lqr+qR+llGedL++Ls keL++Le+qL++slk iRs++++++l+q+++lq+ke+ l+e+nk+L+++l 
  Gorai.012G180300.2  90 ELSSRQEYLKLKARYDALQRSQRNLLGEDLGPLSSKELESLEKQLDSSLKLIRSTRTQYMLDQLNDLQRKEHLLNEANKTLKQRLV 175
                         45789*****************************************************************************9875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.3E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.515161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.1E-33275IPR002100Transcription factor, MADS-box
CDDcd002653.06E-45276No hitNo description
PRINTSPR004048.9E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.3E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004048.9E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004048.9E-333859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.88390180IPR002487Transcription factor, K-box
PfamPF014863.0E-2593174IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0001708Biological Processcell fate specification
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010093Biological Processspecification of floral organ identity
GO:0048481Biological Processplant ovule development
GO:0048833Biological Processspecification of floral organ number
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: 247 aa     Download sequence    Send to blast
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSN RGKLYEFCSS  60
SSMIKTLERY QKCNYGAPEP NVSSREAALE LSSRQEYLKL KARYDALQRS QRNLLGEDLG  120
PLSSKELESL EKQLDSSLKL IRSTRTQYML DQLNDLQRKE HLLNEANKTL KQRLVEGYQV  180
NSLQLNPNAT EDVGYGRQQV HHQPHGDAFF HPLDCEPTLQ IGYQHDPMSV VTAGPSVNNY  240
MTGWLP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A7e-50751771104Developmental protein SEPALLATA 3
4ox0_B7e-50751771104Developmental protein SEPALLATA 3
4ox0_C7e-50751771104Developmental protein SEPALLATA 3
4ox0_D7e-50751771104Developmental protein SEPALLATA 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.14160.0flower| flowering
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in flowers and seeds. {ECO:0000269|Ref.1}.
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
MP00605ChIP-seqTransfer from AT1G24260Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMap-Retrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAF5389650.0AF538965.1 Gossypium hirsutum MADS box protein GHMADS-1 (MADS-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012460219.10.0PREDICTED: agamous-like MADS-box protein AGL9 homolog
RefseqXP_016694865.10.0PREDICTED: agamous-like MADS-box protein AGL9 homolog
RefseqXP_016721096.10.0PREDICTED: agamous-like MADS-box protein AGL9 homolog
RefseqXP_017612638.10.0PREDICTED: agamous-like MADS-box protein AGL9 homolog
SwissprotQ8LLR01e-156MADS4_VITVI; Agamous-like MADS-box protein MADS4
TrEMBLA0A0B0PLJ90.0A0A0B0PLJ9_GOSAR; Agamous-like MADS-box protein AGL9
TrEMBLA0A0D2S4V40.0A0A0D2S4V4_GOSRA; Uncharacterized protein
TrEMBLA0A1U8JXA30.0A0A1U8JXA3_GOSHI; agamous-like MADS-box protein AGL9 homolog
STRINGGorai.012G180300.11e-162(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G24260.11e-137MIKC_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]