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.012G042600.1
Common NameB456_012G042600
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: 239aa    MW: 27450.3 Da    PI: 9.7992
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G042600.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.31.5e-312473150
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  Gorai.012G042600.1 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 73
                        79***********************************************8 PP
2K-box97.12.8e-32931925100
               K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskK....nellleqieelqkkekelqeen 91 
                         +  s++ea+ + +qqe++kL+++i+  q+ +Rh+lGe L+sL++keL++Le +Lek++ +iRskK    nell+++i  +qk+e elq++n
  Gorai.012G042600.1  93 TPGSVAEANIQFYQQEATKLRRQIRDVQNMNRHILGEALSSLTFKELKNLEGRLEKGICRIRSKKvfvlNELLFAEIGFMQKREVELQNDN 183
                         445699***********************************************************88888********************* PP

               K-box  92 kaLrkklee 100
                         ++Lr+k++e
  Gorai.012G042600.1 184 MYLRAKIAE 192
                         ******986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-421675IPR002100Transcription factor, MADS-box
PROSITE profilePS5006634.1321676IPR002100Transcription factor, MADS-box
CDDcd002655.65E-451790No hitNo description
SuperFamilySSF554556.02E-331788IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-331838IPR002100Transcription factor, MADS-box
PfamPF003198.7E-272572IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-333853IPR002100Transcription factor, MADS-box
PRINTSPR004044.2E-335374IPR002100Transcription factor, MADS-box
PfamPF014864.6E-24101190IPR002487Transcription factor, K-box
PROSITE profilePS5129713.595102196IPR002487Transcription 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: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: 239 aa     Download sequence    Send to blast
MEFPNLDPES SSQKKMGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
IVFSSRGRLY EYANNSVRAT IERYKKACSD ATTPGSVAEA NIQFYQQEAT KLRRQIRDVQ  120
NMNRHILGEA LSSLTFKELK NLEGRLEKGI CRIRSKKVFV LNELLFAEIG FMQKREVELQ  180
NDNMYLRAKI AENERAQQQS NQLMQAASSY NRNFLPVNLL EPSNNDYSNQ DQTPLQLV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P8e-211684169Myocyte-specific enhancer factor 2B
1tqe_Q8e-211684169Myocyte-specific enhancer factor 2B
1tqe_R8e-211684169Myocyte-specific enhancer factor 2B
1tqe_S8e-211684169Myocyte-specific enhancer factor 2B
6c9l_A8e-211684169Myocyte-specific enhancer factor 2B
6c9l_B8e-211684169Myocyte-specific enhancer factor 2B
6c9l_C8e-211684169Myocyte-specific enhancer factor 2B
6c9l_D8e-211684169Myocyte-specific enhancer factor 2B
6c9l_E8e-211684169Myocyte-specific enhancer factor 2B
6c9l_F8e-211684169Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in flowers and seeds. {ECO:0000269|PubMed:11414613}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF2020910.0EF202091.1 Gossypium hirsutum MADS-box protein MADS7 mRNA, complete cds, alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016751324.11e-174PREDICTED: agamous-like MADS-box protein AGL1 isoform X1
SwissprotQ93XH41e-122MADS1_VITVI; Agamous-like MADS-box protein MADS1
TrEMBLA0A0D2V1771e-174A0A0D2V177_GOSRA; Uncharacterized protein
STRINGGorai.012G042600.11e-175(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33412350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58780.11e-123MIKC_MADS family protein
Publications ? help Back to Top
  1. Boss PK,Vivier M,Matsumoto S,Dry IB,Thomas MR
    A cDNA from grapevine (Vitis vinifera L.), which shows homology to AGAMOUS and SHATTERPROOF, is not only expressed in flowers but also throughout berry development.
    Plant Mol. Biol., 2001. 45(5): p. 541-53
    [PMID:11414613]
  2. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  3. 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]
  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]