PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Glyma.07G163700.1.p
Common NameGLYMA_07G163700
Organism
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: 469aa    MW: 53047.1 Da    PI: 8.6766
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.07G163700.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.51.1e-17896498
                         E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                   B3  4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95
                         +l+ + +l+s++l++p +f++++g +   s+  tl+ ++g +W + l  +k ++r+++ +GW++Fv+   + +g f+vF+++g+s+f   v+
  Glyma.07G163700.1.p  8 KLVLPTTLQSRQLRIPDNFLRKYGTQ--LSTIATLTVPDGSVWPIGL--KKADNRIWFVDGWQDFVQRYSIGVGYFLVFMYEGNSSF--IVH 93
                         445567778888***********966..9999***************..*************************************9..999 PP

                         EE- CS
                   B3 96 vfr 98
                         +f+
  Glyma.07G163700.1.p 94 IFN 96
                         986 PP

2B360.13.7e-19334425499
                          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.07G163700.1.p 334 VLRPSYLYRGCIMYLPSTFAEKNlNGVSG---FIKLQLSNGRQWSVRCLYRGGR--AKLSQGWFEFTVENNLGEGDVCVFELLRMKEVVL 418
                          78899******************876743...59999999********665555..66***********************998899999 PP

                          EEEEE-S CS
                   B3  93 vvkvfrk 99 
                           v+vfr 
  Glyma.07G163700.1.p 419 QVTVFRV 425
                          9999985 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.28E-24397IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.9E-23397IPR015300DNA-binding pseudobarrel domain
CDDcd100174.96E-19496No hitNo description
PROSITE profilePS5086313.352598IPR003340B3 DNA binding domain
SMARTSM010191.5E-16698IPR003340B3 DNA binding domain
PfamPF023621.4E-151096IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.2E-24323424IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.55E-24324425IPR015300DNA-binding pseudobarrel domain
CDDcd100172.91E-21329424No hitNo description
SMARTSM010193.5E-19331426IPR003340B3 DNA binding domain
PROSITE profilePS5086314.325331426IPR003340B3 DNA binding domain
PfamPF023629.0E-17334424IPR003340B3 DNA binding domain
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
Sequence ? help Back to Top
Protein Sequence    Length: 469 aa     Download sequence    Send to blast
MPRPCFDKLV LPTTLQSRQL RIPDNFLRKY GTQLSTIATL TVPDGSVWPI GLKKADNRIW  60
FVDGWQDFVQ RYSIGVGYFL VFMYEGNSSF IVHIFNLSTS EVNYQSAMRN HNEGSCFANY  120
HHIFDEMEDV DSLGLSDLSP QYLTPGALQS KGFAGSVDQL TPGKSHTPAL QNLFNGGSKL  180
NRVNWGDGGS AFSLKDANSQ GNQSTRDIGV QFNAVEFKRS TEELKLRYSN SNEEAVNKTA  240
KKKRKSEPCK FLFLFKFSLS GNVKDDIFLL ITNTMCGTID GEEPSGENEE EAEMRYRFYE  300
SASARKRTVT AEERERAINA SKTFEPTNPF CRVVLRPSYL YRGCIMYLPS TFAEKNLNGV  360
SGFIKLQLSN GRQWSVRCLY RGGRAKLSQG WFEFTVENNL GEGDVCVFEL LRMKEVVLQV  420
TVFRVTEDAG LLNQLPMQQQ QQSPNISHTK LLNPHLQHRI STTKLIRN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-7129742715144B3 domain-containing transcription factor VRN1
4i1k_B2e-7129742715144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.189980.0leaf| root| somatic embryo
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.07G163700.1.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_003529203.10.0B3 domain-containing transcription factor VRN1
RefseqXP_028240648.10.0B3 domain-containing transcription factor VRN1-like
SwissprotQ8L3W12e-71VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLK7L2450.0K7L245_SOYBN; Uncharacterized protein
STRINGGLYMA07G21160.20.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21473485
Representative plantOGRP20511436
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.14e-73related to vernalization1 1
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]