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.20G008700.2.p
Common NameGLYMA_20G008700, LOC100789352
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 B3
Protein Properties Length: 417aa    MW: 47236.2 Da    PI: 8.6114
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.20G008700.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3512.6e-161771698
                         EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                   B3 16 lvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                         +++p +f++++g +   s+  tl+ ++g +W++ l  +k ++r+++ +GW++Fv+   + +g f+vF+++g+s+f   v++f+
  Glyma.20G008700.2.p  1 MRIPDNFLRKYGTQ--LSTIATLTVPDGSVWRIGL--KKADNRILFVDGWQDFVQHYSIGVGYFLVFMYEGNSSF--IVHIFN 77
                         68*********966..9999***************..*************************************9..999986 PP
2B359.36.6e-19282373499
                          E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
                   B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                          vl ps+  + ++++lp  fae++ +g++     ++l+ ++gr+W+v++ yr+++    l++GW eF  +n+L egD++vF+l +++e  l
  Glyma.20G008700.2.p 282 VLRPSYLYRGCIMYLPSCFAEKNlNGVSG---FIKLQLSNGRQWSVRCLYRGGR--AKLSQGWFEFTVENNLGEGDVCVFELLRTKEVVL 366
                          78899******************876743...59999999********665555..66************************99999999 PP

                          EEEEE-S CS
                   B3  93 vvkvfrk 99 
                           v+vfr 
  Glyma.20G008700.2.p 367 QVTVFRV 373
                          **99985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086314.395179IPR003340B3 DNA binding domain
PfamPF023624.9E-14177IPR003340B3 DNA binding domain
CDDcd100174.19E-17177No hitNo description
SMARTSM010195.1E-7179IPR003340B3 DNA binding domain
SuperFamilySSF1019362.35E-20178IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.2E-18178IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-24271372IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.96E-24272373IPR015300DNA-binding pseudobarrel domain
CDDcd100172.66E-22277372No hitNo description
SMARTSM010193.7E-19279374IPR003340B3 DNA binding domain
PROSITE profilePS5086314.099279374IPR003340B3 DNA binding domain
PfamPF023628.0E-17282372IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009909Biological Processregulation of flower development
GO:0010048Biological Processvernalization response
GO:0005654Cellular Componentnucleoplasm
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 417 aa     Download sequence    Send to blast
MRIPDNFLRK YGTQLSTIAT LTVPDGSVWR IGLKKADNRI LFVDGWQDFV QHYSIGVGYF  60
LVFMYEGNSS FIVHIFNLST SEVNYQSAIR NRNEGSCLAN YHHIFDEMED VDSLDLSDLS  120
PQYLTPGSLQ NKGCVGSVDQ LTPGKSHTPA LQNLFNGGSK LNRINWGDGG SAFSSKNANS  180
QGNQSTRDIG VQFNANEFKR STEELKLRYS NEETVNKTAK KKRKSEPYGE EPSGENEEEA  240
EMRYRFYESA SARKRTVTAE ERERAINASK TFEPTNPFCR VVLRPSYLYR GCIMYLPSCF  300
AEKNLNGVSG FIKLQLSNGR QWSVRCLYRG GRAKLSQGWF EFTVENNLGE GDVCVFELLR  360
TKEVVLQVTV FRVTEDAGLL NQPPMMQQQH IPNMSHTKLL NPHLQHRVST TKLIRN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A6e-7324537515144B3 domain-containing transcription factor VRN1
4i1k_B6e-7324537515144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots and at lower levels in aerial parts. {ECO:0000269|PubMed:12114624}.
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269|PubMed:12114624}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.20G008700.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0946860.0BT094686.1 Soybean clone JCVI-FLGm-24P12 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014628383.10.0B3 domain-containing transcription factor VRN1 isoform X2
RefseqXP_028222198.10.0B3 domain-containing transcription factor VRN1-like isoform X2
SwissprotQ8L3W11e-116VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0R0E5060.0A0A0R0E506_SOYBN; Uncharacterized protein
TrEMBLA0A445EZ980.0A0A445EZ98_GLYSO; B3 domain-containing transcription factor VRN1 isoform B
STRINGGLYMA20G01130.10.0(Glycine max)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-114B3 family protein
Publications ? help Back to Top
  1. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  2. Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS
    Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana.
    Plant Cell Rep., 2018. 37(6): p. 901-912
    [PMID:29541883]