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 Gorai.012G150900.1
Common NameB456_012G150900
Organism
Gossypium raimondii
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: 386aa    MW: 45001.5 Da    PI: 8.9236
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G150900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B346.56.5e-15341091798
                         E--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                  B3  17 vlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                         ++p +f++++g +   s+   l+ ++g +W+v +  rk ++++++ +GW+eFv+   +++g  +vF+++g+s+f  +v++f+
  Gorai.012G150900.1  34 RIPDNFVKKFGDE--LSVAAALTVPDGHVWRVGI--RKADKKVWFHEGWQEFVERYYIRAGYLLVFRYEGNSCF--CVSIFS 109
                         69*****999865..99*****************..**************************************..999986 PP
2B362.37.7e-20255346499
                         E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                  B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                         vl ps+  + ++++lp  fae++ +g++     ++l+ ++gr+W v+++yr+++    +++GW eF  +n+L egD+++F+l +++ef l+
  Gorai.012G150900.1 255 VLRPSYLYRGCIMYLPSCFAEKYlSGVSG---FIKLQLPDGRQWPVRCRYRGGK--AKFSQGWYEFTLENNLGEGDVCIFELLRSREFVLK 340
                         78899******************866743...5***************555555..6699**********************999****** PP

                         EEEE-S CS
                  B3  94 vkvfrk 99 
                         v+vfr 
  Gorai.012G150900.1 341 VTVFRV 346
                         ***985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.77E-1818109IPR015300DNA-binding pseudobarrel domain
SMARTSM010197.5E-1120111IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.105.1E-1923109IPR015300DNA-binding pseudobarrel domain
PfamPF023625.8E-1234109IPR003340B3 DNA binding domain
CDDcd100172.91E-1634109No hitNo description
PROSITE profilePS5086311.63235111IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.9E-24243345IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.47E-24245345IPR015300DNA-binding pseudobarrel domain
CDDcd100171.25E-22250345No hitNo description
PROSITE profilePS5086313.958252347IPR003340B3 DNA binding domain
SMARTSM010192.2E-23252347IPR003340B3 DNA binding domain
PfamPF023621.0E-17255345IPR003340B3 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: 386 aa     Download sequence    Send to blast
MFMCYDVYMH LNHSSPDFII CQITKPNLIW VLQRIPDNFV KKFGDELSVA AALTVPDGHV  60
WRVGIRKADK KVWFHEGWQE FVERYYIRAG YLLVFRYEGN SCFCVSIFSL YNSEINYQTN  120
AFVGTQYYHR KPYPFEELED DECISPALQN LFSRSKVNNC MNWSGEINFR ALKGMNSQSF  180
RGAVLSKPNK PGRKKQKFDH AEPDSSVGRE YDVYTNFRLY ESASARKRTV TTEERERAIN  240
TAKSFEPMNP FCRVVLRPSY LYRGCIMYLP SCFAEKYLSG VSGFIKLQLP DGRQWPVRCR  300
YRGGKAKFSQ GWYEFTLENN LGEGDVCIFE LLRSREFVLK VTVFRVRESA PVSMKCRPEL  360
NQLTYSEHTL PDDVKPIRVD KSMPF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-7321834815144B3 domain-containing transcription factor VRN1
4i1k_B2e-7321834815144B3 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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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
RefseqXP_012458780.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-131VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2VZJ00.0A0A0D2VZJ0_GOSRA; Uncharacterized protein
STRINGGorai.012G150900.10.0(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-126B3 family protein
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. 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]
  3. 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]