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 Potri.015G098400.6
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family MIKC_MADS
Protein Properties Length: 190aa    MW: 22025.4 Da    PI: 10.791
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.015G098400.6genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF89.22.1e-28959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien+  rqvtfskRrng+lKKA+ELS+LC+aev++iifs++gk+y +ss
  Potri.015G098400.6  9 KRIENSASRQVTFSKRRNGLLKKAFELSILCEAEVSLIIFSPSGKFYQFSS 59
                        79***********************************************96 PP
2K-box64.24.9e-2280157885
               K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkek 85 
                         ++ ++  e ++ e++ L++ i + + ++Rh++Ged+ +L lkeL+qLe+qL++++++iRskK++++ e+i+ l+   +
  Potri.015G098400.6  80 DQRSRSLEFWRCEIEELRRTITKTEAQLRHFIGEDIAPLGLKELKQLERQLKTGVERIRSKKKRVISEHIKLLKSEVR 157
                         46777899***************************************************************9998766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.3E-38160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.693161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.2E-31288IPR002100Transcription factor, MADS-box
CDDcd002653.13E-36270No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-29323IPR002100Transcription factor, MADS-box
PfamPF003191.7E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-293859IPR002100Transcription factor, MADS-box
PfamPF014861.6E-1983157IPR002487Transcription factor, K-box
PROSITE profilePS5129710.91286189IPR002487Transcription 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: 190 aa     Download sequence    Send to blast
MGRGKVELKR IENSASRQVT FSKRRNGLLK KAFELSILCE AEVSLIIFSP SGKFYQFSSH  60
DMERSVARYR SEVGLPGTND QRSRSLEFWR CEIEELRRTI TKTEAQLRHF IGEDIAPLGL  120
KELKQLERQL KTGVERIRSK KKRVISEHIK LLKSEVRRSS SSYAPSYVSS TIRAHINRLF  180
LDLYDHLRI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A3e-21169169MEF2 CHIMERA
6byy_B3e-21169169MEF2 CHIMERA
6byy_C3e-21169169MEF2 CHIMERA
6byy_D3e-21169169MEF2 CHIMERA
6bz1_A3e-21169169MEF2 CHIMERA
6bz1_B3e-21169169MEF2 CHIMERA
6bz1_C3e-21169169MEF2 CHIMERA
6bz1_D3e-21169169MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.121310.0bud| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in the outer layers of the root meristem (lateral root cap and epidermis) and in the central cylinder cells of mature roots. Also present in rosette leaves and seedlings and, to a lesser extent, in cauline leaves and flowers. Enriched in apices including the shoot apical meristem and developing leaf primordia. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:16778081}.
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
PlantRegMapPotri.015G098400.6
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1450250.0EF145025.1 Populus trichocarpa clone WS0111_J17 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002321711.11e-108truncated transcription factor CAULIFLOWER D
SwissprotO827433e-43AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA9PA191e-106A9PA19_POPTR; Uncharacterized protein
STRINGVIT_17s0000g01230.t012e-77(Vitis vinifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G22950.13e-37AGAMOUS-like 19
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]