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 Tp57577_TGAC_v2_mRNA38846
Organism
Trifolium pratense
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Trifolium
Family MIKC_MADS
Protein Properties Length: 262aa    MW: 30422.9 Da    PI: 8.1067
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp57577_TGAC_v2_mRNA38846genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF99.51.3e-3157107151
                                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                     SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                                krien+snrqvtfskRrng+lKKA+ELSvLCdaeva+i+fs+tgklye+ss
  Tp57577_TGAC_v2_mRNA38846  57 KRIENESNRQVTFSKRRNGLLKKAFELSVLCDAEVALIVFSTTGKLYEFSS 107
                                79***********************************************96 PP
2K-box64.24.8e-221442192297
                      K-box  22 akLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                                 +  k++enL+ ++R+llG++L+++ + eLq++e+qLe+sl+kiR++K++l++eq+e+l++kek+l een++L ++
  Tp57577_TGAC_v2_mRNA38846 144 INTTKKLENLELSKRKLLGDELDTCAFDELQKIENQLERSLSKIRARKDQLFKEQLEKLREKEKDLLEENRRLCEQ 219
                                366799******************************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.32449109IPR002100Transcription factor, MADS-box
SMARTSM004325.7E-4149108IPR002100Transcription factor, MADS-box
CDDcd002651.15E-3851119No hitNo description
PROSITE patternPS00350051105IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.79E-3251121IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-315171IPR002100Transcription factor, MADS-box
PfamPF003191.4E-2758105IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-317186IPR002100Transcription factor, MADS-box
PRINTSPR004042.9E-3186107IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.346136226IPR002487Transcription factor, K-box
PfamPF014868.9E-23144219IPR002487Transcription 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: 262 aa     Download sequence    Send to blast
LYVFTSLRVE ITKDSLFPSK NTIYFCKISS IFSVSISVHS FRSHLFIRMV RGKTQMKRIE  60
NESNRQVTFS KRRNGLLKKA FELSVLCDAE VALIVFSTTG KLYEFSSTSS INKTVERYQS  120
KVKDLALGII GVQEKTQHQK ECDINTTKKL ENLELSKRKL LGDELDTCAF DELQKIENQL  180
ERSLSKIRAR KDQLFKEQLE KLREKEKDLL EENRRLCEQY GIEQDGCLSK QQDIELVMES  240
LEGEEEVETE LFIGRPEKRM N*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-1949118169MEF2C
5f28_B3e-1949118169MEF2C
5f28_C3e-1949118169MEF2C
5f28_D3e-1949118169MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that promotes flowering, especially in response to vernalization by short periods of cold, in an FLC-inpedendent manner. {ECO:0000269|PubMed:16778081}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp57577_TGAC_v2_mRNA38846
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Maintained at very low levels by the polycomb-group (PcG) proteins MSI1, CLF, and EMF2 via histone methylation (H3K27me3). Derepressed upon cold treatment (vernalization). {ECO:0000269|PubMed:16778081}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013457660.11e-110agamous-like MADS-box protein AGL19 isoform X1
RefseqXP_024638693.11e-110agamous-like MADS-box protein AGL19 isoform X1
SwissprotO827439e-67AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A072UQQ31e-109A0A072UQQ3_MEDTR; MADS-box transcription factor
STRINGXP_004515788.11e-102(Cicer arietinum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF66630102
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.18e-58AGAMOUS-like 14
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. 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]