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_009133732.1
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: 252aa    MW: 28922 Da    PI: 9.1642
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009133732.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.33.1e-31958150
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                    k ienk+nrqvtfskRrng++KKA+ELSvLCdaeva+i+fss+gklye+ 
  XP_009133732.1  9 KLIENKINRQVTFSKRRNGLMKKAYELSVLCDAEVALIVFSSRGKLYEFG 58
                    569*********************************************95 PP
2K-box942.4e-3179173699
           K-box   6 gks.leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                     +++  e+++a +++qe++kLk+ +e+L r++RhllGedL+++slkeL  Le+qLe +l++ R++K+++++e++e+l+kke++l ++nk+L+ k++
  XP_009133732.1  79 NSRpEESTQACNWCQEVTKLKSHYESLVRTNRHLLGEDLGKMSLKELLGLERQLEAALTTTRKRKTQVMIEEMEDLRKKERQLGDINKQLKIKFD 173
                     33357888999*******************************************************************************99986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.534161IPR002100Transcription factor, MADS-box
SMARTSM004322.2E-41160IPR002100Transcription factor, MADS-box
CDDcd002654.32E-43278No hitNo description
SuperFamilySSF554554.58E-34289IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.1E-271157IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004042.2E-313859IPR002100Transcription factor, MADS-box
PfamPF014861.9E-3083172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.77388178IPR002487Transcription 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: 252 aa     Download sequence    Send to blast
MGRGRVEMKL IENKINRQVT FSKRRNGLMK KAYELSVLCD AEVALIVFSS RGKLYEFGSV  60
GVERTIERYH RCYNRSLSNS RPEESTQACN WCQEVTKLKS HYESLVRTNR HLLGEDLGKM  120
SLKELLGLER QLEAALTTTR KRKTQVMIEE MEDLRKKERQ LGDINKQLKI KFDQAEGLAF  180
KSFQYLWPNT AASVAGDPSN SEFPVQSSSV DCNTEPFLQI GFQQHYYVQG EGSSVSKSNI  240
ACKTNFVQDW VL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P8e-20169169Myocyte-specific enhancer factor 2B
1tqe_Q8e-20169169Myocyte-specific enhancer factor 2B
1tqe_R8e-20169169Myocyte-specific enhancer factor 2B
1tqe_S8e-20169169Myocyte-specific enhancer factor 2B
5f28_A7e-20169169MEF2C
5f28_B7e-20169169MEF2C
5f28_C7e-20169169MEF2C
5f28_D7e-20169169MEF2C
6c9l_A8e-20169169Myocyte-specific enhancer factor 2B
6c9l_B8e-20169169Myocyte-specific enhancer factor 2B
6c9l_C8e-20169169Myocyte-specific enhancer factor 2B
6c9l_D8e-20169169Myocyte-specific enhancer factor 2B
6c9l_E8e-20169169Myocyte-specific enhancer factor 2B
6c9l_F8e-20169169Myocyte-specific enhancer factor 2B
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1138143TRKRKT
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Preferentially expressed in flowers.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Forms a heterodimer via the K-box domain with AG, that could be involved in genes regulation during floral meristem development.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009133732.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5084090.0AJ508409.1 Brassica oleracea var. botrytis mRNA for MADS-box protein AGL6-a (agl6-a gene), short splice variant.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009133732.10.0PREDICTED: agamous-like MADS-box protein AGL6 isoform X1
RefseqXP_022571764.10.0agamous-like MADS-box protein AGL6 isoform X1
SwissprotP293861e-153AGL6_ARATH; Agamous-like MADS-box protein AGL6
TrEMBLM4C8640.0M4C864_BRARP; Uncharacterized protein
STRINGBra000392.1-P0.0(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
AT2G45650.11e-155AGAMOUS-like 6
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]
  2. Dreni L,Zhang D
    Flower development: the evolutionary history and functions of the AGL6 subfamily MADS-box genes.
    J. Exp. Bot., 2016. 67(6): p. 1625-38
    [PMID:26956504]