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_009138791.1
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: 244aa    MW: 27984.7 Da    PI: 6.528
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009138791.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.55.4e-31959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krienk nrqvtfskR+ g+lKKA+ELSvLCd+eva+iifss+gklye+ss
  XP_009138791.1  9 KRIENKVNRQVTFSKRKGGLLKKAYELSVLCDVEVALIIFSSSGKLYEFSS 59
                    79***********************************************96 PP
2K-box86.74.5e-2980170898
           K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     +  e+ +++++qe++kL++++e+L r++R llGedL+++s+keL+ Le+qLe +l+  R++K+++ +eq+e+l++ke++l ++nk+++ ++
  XP_009138791.1  80 NRPEESTQKWSQEVTKLRSKYESLLRTHRYLLGEDLGEMSVKELETLERQLEGALSATRQRKMQVTMEQMEDLRRKERQLGDINKKMKLEV 170
                     4567889******************************************************************************998776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.212161IPR002100Transcription factor, MADS-box
SMARTSM004322.0E-38160IPR002100Transcription factor, MADS-box
CDDcd002651.59E-41278No hitNo description
PRINTSPR004042.6E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.88E-32383IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003193.9E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004042.6E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004042.6E-313859IPR002100Transcription factor, MADS-box
PfamPF014869.8E-2783170IPR002487Transcription factor, K-box
PROSITE profilePS5129714.77986176IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009555Biological Processpollen development
GO:0048481Biological Processplant ovule development
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: 244 aa     Download sequence    Send to blast
MARGRVEVKR IENKVNRQVT FSKRKGGLLK KAYELSVLCD VEVALIIFSS SGKLYEFSSD  60
AMEKTIERYN RCNINILDNN RPEESTQKWS QEVTKLRSKY ESLLRTHRYL LGEDLGEMSV  120
KELETLERQL EGALSATRQR KMQVTMEQME DLRRKERQLG DINKKMKLEV EGHEFKGFQD  180
LLLNSDARAG STDFSLLSSH HNSVDCDVGQ FLKIGFQQQY EQGDGSLVLE SNVGCDCETN  240
LTQG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-22179187MEF2 CHIMERA
6byy_B1e-22179187MEF2 CHIMERA
6byy_C1e-22179187MEF2 CHIMERA
6byy_D1e-22179187MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00417DAPTransfer from AT3G61120Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009138791.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009138791.11e-179PREDICTED: agamous-like MADS-box protein AGL13
SwissprotQ388371e-115AGL13_ARATH; Agamous-like MADS-box protein AGL13
TrEMBLA0A397ZIS41e-178A0A397ZIS4_BRACM; Uncharacterized protein
STRINGBra014454.1-P1e-164(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43022654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61120.11e-118AGAMOUS-like 13
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]