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 XP_009129675.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 241aa    MW: 27187.2 Da    PI: 8.9787
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009129675.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF916.1e-291058250
                    ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
          SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                    rienk++rqvtfskRr+g+ KKA+E+SvLCda+va+i+fs++gkl+eys
  XP_009129675.1 10 RIENKIRRQVTFSKRRTGLVKKAQEISVLCDADVALIVFSPKGKLFEYS 58
                    8***********************************************8 PP
2K-box81.71.7e-27891731599
           K-box  15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      ++++e +kL + i+ +q ++Rhl+Ge+++ Ls++eLq+Le qL++sl++ Rs+Kn+l++e++ +lqkkekel+e +k+L+kk++
  XP_009129675.1  89 GECSTECSKLLRMIDAMQISLRHLKGEEVDALSIRELQSLEMQLDTSLRRTRSRKNQLMVESLAQLQKKEKELKELKKQLTKKVD 173
                     57899******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.3E-37160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.6161IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.66E-31280IPR002100Transcription factor, MADS-box
CDDcd002651.00E-39279No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-28323IPR002100Transcription factor, MADS-box
PfamPF003191.2E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-283859IPR002100Transcription factor, MADS-box
PfamPF014861.6E-2287172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.76488178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 241 aa     Download sequence    Send to blast
MGRGRVQLRR IENKIRRQVT FSKRRTGLVK KAQEISVLCD ADVALIVFSP KGKLFEYSAG  60
SSMERILDRY ERCSYAGQDI PTPSLDSQGE CSTECSKLLR MIDAMQISLR HLKGEEVDAL  120
SIRELQSLEM QLDTSLRRTR SRKNQLMVES LAQLQKKEKE LKELKKQLTK KVDQGEDIEP  180
QNISQGLDST PPCETPHLLP GPISPHPPLS IGTYRDTSQM NEIGEKDTGI LVRSGNTTLP  240
H
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-19170169MEF2C
5f28_B5e-19170169MEF2C
5f28_C5e-19170169MEF2C
5f28_D5e-19170169MEF2C
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009129675.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1412380.0AY141238.1 Arabidopsis thaliana MADS-box protein AGL79 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009129675.11e-176PREDICTED: truncated transcription factor CAULIFLOWER A-like
SwissprotQ6E6S72e-72AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A078I9221e-175A0A078I922_BRANA; BnaAnng07800D protein
STRINGBo2g149440.11e-173(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM130331525
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G30260.11e-112AGAMOUS-like 79
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. 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]