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 Gh_A04G1445
Organism
Gossypium hirsutum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family B3
Protein Properties Length: 320aa    MW: 37253.8 Da    PI: 9.3826
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gh_A04G1445genomeNAU-NBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.41.3e-18596198
                 EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
           B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                 ff +l+ s +l++  l++p +f++++g +   s+   l+ ++g +W+v +  rk ++++++ +GW+eFv+  ++++g  +vF+++g+s+f   v++f+
  Gh_A04G1445  5 FFHKLILSTTLQHEKLRIPDNFVKKFGDE--LSVAAALTVPDGHVWRVGI--RKADNKVWFHEGWQEFVERYHIRVGYLLVFRYEGNSCF--SVSIFS 96
                 8899999******************9865..99*****************..**************************************..888875 PP
2B3521.2e-162002781799
                  E--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
           B3  17 vlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                  +lp  fae++ +g++     ++l+ ++gr+W ++++yr+++    +++GW eF  +n+L egD+++F+l +++ef l+v+vfr 
  Gh_A04G1445 200 YLPSCFAEKYlSGVSG---FIKLQLPDGRQWPIRCRYRGGK--AKFSQGWYEFTLENNLGEGDVCIFELLRSREFVLKVTVFRV 278
                  79********866643...59**************555555..6699**********************999*********985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.0E-23396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.53E-22396IPR015300DNA-binding pseudobarrel domain
CDDcd100174.72E-20596No hitNo description
PfamPF023621.0E-15596IPR003340B3 DNA binding domain
PROSITE profilePS5086313.944598IPR003340B3 DNA binding domain
SMARTSM010196.0E-18698IPR003340B3 DNA binding domain
PROSITE profilePS5086312.844184279IPR003340B3 DNA binding domain
SMARTSM010199.6E-17189279IPR003340B3 DNA binding domain
SuperFamilySSF1019361.04E-19197277IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.8E-19198277IPR015300DNA-binding pseudobarrel domain
CDDcd100171.28E-16200277No hitNo description
PfamPF023628.4E-15200277IPR003340B3 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: 320 aa     Download sequence    Send to blast
MPRPFFHKLI LSTTLQHEKL RIPDNFVKKF GDELSVAAAL TVPDGHVWRV GIRKADNKVW  60
FHEGWQEFVE RYHIRVGYLL VFRYEGNSCF SVSIFSLYNS EINYQTNAFV GTQYYHRKPY  120
PFEELEDDEC ISPALQNLFS ASKVNNCMNW SGEINFRALK GMNSQSFRGA VLPKPNKPGR  180
KKQKFDHAYL TVLFDVSLQY LPSCFAEKYL SGVSGFIKLQ LPDGRQWPIR CRYRGGKAKF  240
SQGWYEFTLE NNLGEGDVCI FELLRSREFV LKVTVFRVRE SAPVSMKCRP ELNQLTYSEH  300
ILPDDVKPIR VNKSMPFRCP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A7e-4119328058144B3 domain-containing transcription factor VRN1
4i1k_B7e-4119328058144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ghi.167560.0boll| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1098613920.0
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}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGU9296950.0GU929695.1 Gossypium hirsutum reduced vernalization response 1 (V1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001313711.11e-176B3 domain-containing transcription factor VRN1-like
SwissprotQ8L3W11e-101VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A1U8HYZ41e-175A0A1U8HYZ4_GOSHI; B3 domain-containing transcription factor VRN1-like
STRINGGorai.012G150900.11e-151(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112428103
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-103B3 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]