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.013G039800.6
Common NameB456_013G039800
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: 195aa    MW: 22156.5 Da    PI: 10.2695
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.013G039800.6genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B366.44.3e-2192182498
                         E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                  B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                         vl ps+  + ++++lp  fae+h +g+   s  ++l+ ++gr+W+v++  r k+g+  +++GW eF  +n+L egD++vF+l +++e  l+
  Gorai.013G039800.6  92 VLRPSYLYRGCIMYLPSCFAEKHlSGV---SDSIKLQLPDGRQWSVRC--RYKGGKAKFSRGWYEFTLENNLGEGDVCVFELLRSREIVLK 177
                         7889*******************8666...336***************..667777779**********************9998888899 PP

                         EEEE- CS
                  B3  94 vkvfr 98 
                         v+vfr
  Gorai.013G039800.6 178 VTVFR 182
                         99998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.1E-2581182IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.1E-2483182IPR015300DNA-binding pseudobarrel domain
CDDcd100171.63E-2487182No hitNo description
PROSITE profilePS5086314.25489184IPR003340B3 DNA binding domain
SMARTSM010197.0E-2289184IPR003340B3 DNA binding domain
PfamPF023627.7E-1992182IPR003340B3 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: 195 aa     Download sequence    Send to blast
MHLNLKNSAN EVKLRTSGSG AMKPEPKKRG RKRKFDPNVQ DSSAGREDDA DMRLRCYESA  60
SARKRTVTAE ERERAINAAK AFEPINPFCR VVLRPSYLYR GCIMYLPSCF AEKHLSGVSD  120
SIKLQLPDGR QWSVRCRYKG GKAKFSRGWY EFTLENNLGE GDVCVFELLR SREIVLKVTV  180
FRVMESGGLM HRSQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A8e-735518515144B3 domain-containing transcription factor VRN1
4i1k_B8e-735518515144B3 domain-containing transcription factor VRN1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gra.31490.0flower|seedling| flowering
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
GenBankJX5879935e-90JX587993.1 Gossypium hirsutum clone NBRI_GE22287 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012462596.11e-129PREDICTED: B3 domain-containing protein REM19-like
RefseqXP_012462597.11e-129PREDICTED: B3 domain-containing protein REM19-like
RefseqXP_016674964.11e-129PREDICTED: B3 domain-containing protein REM19-like
RefseqXP_017619827.11e-129PREDICTED: B3 domain-containing protein REM19-like
SwissprotQ8L3W14e-81VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2V8U21e-142A0A0D2V8U2_GOSRA; Uncharacterized protein
STRINGGorai.013G039800.11e-129(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.14e-79B3 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]