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 Thhalv10005413m
Common NameEUTSA_v10005413mg
Organism
Eutrema salsugineum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Eutremeae; Eutrema
Family MIKC_MADS
Protein Properties Length: 232aa    MW: 26525.7 Da    PI: 8.0635
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thhalv10005413mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF54.41.6e-17948140
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviif 40
                     kri+nks rqvtfskRrng++ KA  LS+LC+  +av+++
  Thhalv10005413m  9 KRIDNKSSRQVTFSKRRNGLIEKARQLSILCESSIAVLVV 48
                     79*********************************98753 PP
2K-box26.23.3e-101511993684
            K-box  36 RhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkke 84 
                       +l   ++++ s+  L ++e+qLe++++  R++K+el++e +++lq+k 
  Thhalv10005413m 151 SNLEEPNVDNVSVDSLISVEDQLETAMSVTRARKTELMMEFVKTLQEKL 199
                      555556778999**********************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF554551.1E-18148IPR002100Transcription factor, MADS-box
PROSITE profilePS5006623.731148IPR002100Transcription factor, MADS-box
SMARTSM004322.5E-21161IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-17323IPR002100Transcription factor, MADS-box
PfamPF003192.2E-161048IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-172338IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-173859IPR002100Transcription factor, MADS-box
PROSITE profilePS512979.219129216IPR002487Transcription factor, K-box
PfamPF014864.9E-6157198IPR002487Transcription 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: 232 aa     Download sequence    Send to blast
MGRRKVEIKR IDNKSSRQVT FSKRRNGLIE KARQLSILCE SSIAVLVVFG LRQALQLLLR  60
RQIWFIYPIL RCTSGRFVDR LIGVNGDFDQ DSLVEIWMPH CPLQLLFQNV FMTKIIDRYD  120
IQHADDLKTL ELAEKTRNYL PHKELLELVQ SNLEEPNVDN VSVDSLISVE DQLETAMSVT  180
RARKTELMME FVKTLQEKLG KNTALVTDDE RALSPASNSG NNPPETLSLL K*
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
PlantRegMapThhalv10005413m
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
GenBankAK3527771e-144AK352777.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-07-K22.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024007051.11e-105LOW QUALITY PROTEIN: agamous-like MADS-box protein AGL27
SwissprotQ9LSR72e-78AGL70_ARATH; Agamous-like MADS-box protein AGL70
TrEMBLV4KVF71e-168V4KVF7_EUTSA; Uncharacterized protein
STRINGXP_006394082.11e-169(Eutrema salsugineum)
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
AT5G65060.18e-81MIKC_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]