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 Glyma.05G050700.1.p
Common NameGLYMA_05G050700, LOC100805260
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family MIKC_MADS
Protein Properties Length: 228aa    MW: 26810.8 Da    PI: 9.7204
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.05G050700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.52.4e-30959151
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                         krien++ rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++g+lye+ss
  Glyma.05G050700.1.p  9 KRIENETSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSTRGRLYEFSS 59
                         79***********************************************96 PP
2K-box65.42e-22871741198
                K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                          ++++++l++    + k+ie L+ + R+llG++L+++s+ eLqqLe+qLe+sl kiR++Kn+l+++ ie+l++ ek l e nk+Lr+++
  Glyma.05G050700.1.p  87 HENTQHLKEVDMSMAKKIEHLEDSRRKLLGDELDKCSIDELQQLENQLERSLDKIRATKNQLFRKRIEKLKEEEKCLLEVNKRLREQY 174
                          4668999999999************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.5E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.917161IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.09E-30375IPR002100Transcription factor, MADS-box
CDDcd002657.45E-38373No hitNo description
PRINTSPR004044.7E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004044.7E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004044.7E-313859IPR002100Transcription factor, MADS-box
PfamPF014861.6E-2189174IPR002487Transcription factor, K-box
PROSITE profilePS5129714.25590180IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010048Biological Processvernalization response
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
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
MVRGKTQMKR IENETSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFST RGRLYEFSSS  60
RCSSINKTVE RYQRKIEDLG VSNKGIHENT QHLKEVDMSM AKKIEHLEDS RRKLLGDELD  120
KCSIDELQQL ENQLERSLDK IRATKNQLFR KRIEKLKEEE KCLLEVNKRL REQYRIERQR  180
CLSDQDVEFA TKKEGEEVET ELFIGRPERR MPLKLKPTTY SAHAYIA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-17160160MEF2C
5f28_B3e-17160160MEF2C
5f28_C3e-17160160MEF2C
5f28_D3e-17160160MEF2C
6byy_A3e-17160160MEF2 CHIMERA
6byy_B3e-17160160MEF2 CHIMERA
6byy_C3e-17160160MEF2 CHIMERA
6byy_D3e-17160160MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.143610.0root
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
PlantRegMapGlyma.05G050700.1.p
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
GenBankBT0992180.0BT099218.1 Soybean clone JCVI-FLGm-13H19 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006579437.11e-164uncharacterized protein LOC100805260 isoform X1
RefseqXP_006579438.11e-164uncharacterized protein LOC100805260 isoform X1
RefseqXP_028231659.11e-164agamous-like MADS-box protein AGL19 isoform X1
RefseqXP_028231660.11e-164agamous-like MADS-box protein AGL19 isoform X1
SwissprotO827435e-74AGL19_ARATH; Agamous-like MADS-box protein AGL19
TrEMBLA0A445KJC11e-163A0A445KJC1_GLYSO; Agamous-like MADS-box protein AGL19
TrEMBLI1K0E61e-163I1K0E6_SOYBN; Uncharacterized protein
STRINGGLYMA05G03660.81e-164(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF66630102
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.12e-71AGAMOUS-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]