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.012G150900.2
Common NameB456_012G150900, LOC105779533
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: 373aa    MW: 43435.8 Da    PI: 9.5758
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.012G150900.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.88.2e-18596198
                        EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
                  B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93
                        ff +l+ s +l+++ l++p +f++++g +   s+   l+ ++g +W+v +  rk ++++++ +GW+eFv+   +++g  +vF+++g+s+f  +
  Gorai.012G150900.2  5 FFHKLILSTTLQHKKLRIPDNFVKKFGDE--LSVAAALTVPDGHVWRVGI--RKADKKVWFHEGWQEFVERYYIRAGYLLVFRYEGNSCF--C 91
                        8899999******************9865..99*****************..**************************************..9 PP

                        EEEE- CS
                  B3 94 vkvfr 98
                        v++f+
  Gorai.012G150900.2 92 VSIFS 96
                        99986 PP
2B362.47.2e-20242333499
                         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.012G150900.2 242 VLRPSYLYRGCIMYLPSCFAEKYlSGVSG---FIKLQLPDGRQWPVRCRYRGGK--AKFSQGWYEFTLENNLGEGDVCIFELLRSREFVLK 327
                         78899******************866743...5***************555555..6699**********************999****** PP

                         EEEE-S CS
                  B3  94 vkvfrk 99 
                         v+vfr 
  Gorai.012G150900.2 328 VTVFRV 333
                         ***985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.7E-22396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.73E-21396IPR015300DNA-binding pseudobarrel domain
CDDcd100172.38E-19596No hitNo description
PfamPF023621.0E-14596IPR003340B3 DNA binding domain
PROSITE profilePS5086313.62598IPR003340B3 DNA binding domain
SMARTSM010194.6E-17698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.8E-24230332IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.37E-24232332IPR015300DNA-binding pseudobarrel domain
CDDcd100171.43E-22237332No hitNo description
PROSITE profilePS5086313.958239334IPR003340B3 DNA binding domain
SMARTSM010192.2E-23239334IPR003340B3 DNA binding domain
PfamPF023629.8E-18242332IPR003340B3 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: 373 aa     Download sequence    Send to blast
MPRPFFHKLI LSTTLQHKKL RIPDNFVKKF GDELSVAAAL TVPDGHVWRV GIRKADKKVW  60
FHEGWQEFVE RYYIRAGYLL VFRYEGNSCF CVSIFSLYNS EINYQTNAFV GTQYYHRKPY  120
PFEELEDDEC ISPALQNLFS RSKVNNCMNW SGEINFRALK GMNSQSFRGA VLSKPNKPGR  180
KKQKFDHAEP DSSVGREYDV YTNFRLYESA SARKRTVTTE ERERAINTAK SFEPMNPFCR  240
VVLRPSYLYR GCIMYLPSCF AEKYLSGVSG FIKLQLPDGR QWPVRCRYRG GKAKFSQGWY  300
EFTLENNLGE GDVCIFELLR SREFVLKVTV FRVRESAPVS MKCRPELNQL TYSEHTLPDD  360
VKPIRVDKSM PF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7320533515144B3 domain-containing transcription factor VRN1
4i1k_B1e-7320533515144B3 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-145VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2TPX80.0A0A0D2TPX8_GOSRA; Uncharacterized protein
STRINGGorai.012G150900.10.0(Gossypium raimondii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.11e-139B3 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]