PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_013620184.1
Organism
Brassica oleracea
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: 228aa    MW: 25311.8 Da    PI: 7.5105
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013620184.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF60.81.6e-194592148
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                    k ienks  qvtfskRr+g++ KA  LSvLC+  vav+++s +gkly 
  XP_013620184.1 45 KLIENKSSTQVTFSKRRTGLIEKARQLSVLCESSVAVLVVSASGKLYN 92
                    569*******************************************96 PP
2K-box36.32.4e-131302002898
           K-box  28 ienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                     +e L++ + +l   ++++ s+  L +Le+qLe++l+  R++K+el +e ++ lq+ke+ l+een  L +++
  XP_013620184.1 130 NELLESVKSNLEESNVDNVSVDSLISLEDQLETALSATRARKTELTMEFVKMLQEKEELLREENLVLASQI 200
                     7888888889999999************************************************9999887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.4E-283796IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.33E-2437109IPR002100Transcription factor, MADS-box
PROSITE profilePS5006625.963797IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-203959IPR002100Transcription factor, MADS-box
PfamPF003191.1E-184791IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-205974IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-207495IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.62116206IPR002487Transcription factor, K-box
PfamPF014862.4E-10130200IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009910Biological Processnegative regulation of flower development
GO:0010048Biological Processvernalization response
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: 228 aa     Download sequence    Send to blast
MEKKIEINES KEAKTLRVSS DIRLKLGHKA LSEEAAMGRR KVEIKLIENK SSTQVTFSKR  60
RTGLIEKARQ LSVLCESSVA VLVVSASGKL YNSSSGDNMT NIIDRYGIQH ACELRSLDLA  120
EKTRSYLPHN ELLESVKSNL EESNVDNVSV DSLISLEDQL ETALSATRAR KTELTMEFVK  180
MLQEKEELLR EENLVLASQI GKTNGGRQNN SPANSSGINP PETLPLLK
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in roots, leaves and flowers, and, to a lower extent, in inflorescence, siliques, pollen and shoots. {ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering time, probably through the photoperiodic and vernalization pathways; more efficient in cv. Landsberg erecta than in cv. Columbia background. Prevents premature flowering (PubMed:12724541, PubMed:25339407). Involved in the modulation of vernalization impact on flowering according to genotype acclimation to altitude (PubMed:25339407). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:25339407}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013620184.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed during vernalization (PubMed:12724541). Regulated by HAM1 and HAM2 via epigenetic modification of chromatins at H4K5 acetylation during flowering (PubMed:23273925). {ECO:0000269|PubMed:12724541, ECO:0000269|PubMed:23273925}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1667411e-155AC166741.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH080C09, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013620184.11e-163PREDICTED: agamous-like MADS-box protein AGL27 isoform X1
SwissprotQ9LSR73e-90AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLA0A0D3AYS01e-161A0A0D3AYS0_BRAOL; Uncharacterized protein
STRINGBo2g166500.11e-162(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM9861987
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65060.11e-79MIKC_MADS family protein
Publications ? help Back to Top
  1. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  2. Suter L,Rüegg M,Zemp N,Hennig L,Widmer A
    Gene regulatory variation mediates flowering responses to vernalization along an altitudinal gradient in Arabidopsis.
    Plant Physiol., 2014. 166(4): p. 1928-42
    [PMID:25339407]
  3. Nasim Z,Fahim M,Ahn JH
    Possible Role of MADS AFFECTING FLOWERING 3 and B-BOX DOMAIN PROTEIN 19 in Flowering Time Regulation of Arabidopsis Mutants with Defects in Nonsense-Mediated mRNA Decay.
    Front Plant Sci, 2017. 8: p. 191
    [PMID:28261246]