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.005G240900.1
Common NameB456_005G240900, LOC105795280
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: 350aa    MW: 40441.2 Da    PI: 9.2327
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.005G240900.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B350.63.4e-16596198
                        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++++  +   s+   l+ ++g +W+v +  +k +++ ++++GW+eFv+   +++g f++F+++g+s f   
  Gorai.005G240900.1  5 FFHKLILSTTLQDKKLRIPDNFIKKFRDE--LSVAAALTVPDGHVWRVGI--KKVDNKAWFKEGWQEFVERYYIRVGYFLIFRYEGNSAF--S 91
                        788999999**************999755..999****************..99999*****************************9999..9 PP

                        EEEE- CS
                  B3 94 vkvfr 98
                        v++f+
  Gorai.005G240900.1 92 VSIFD 96
                        98886 PP
2B362.66.5e-20247337498
                         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++     ++l+ ++gr+W v++ yr+++    +++GW eF  +n+L egD++vF+l +++ef l+
  Gorai.005G240900.1 247 VLRPSYLYRGCIMYLPSCFAEQHlSGVSG---FIKLQLPDGRQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCVFELLRSREFVLK 332
                         78899******************866743...5***************666665..5699**********************999****** PP

                         EEEE- CS
                  B3  94 vkvfr 98 
                         v+vfr
  Gorai.005G240900.1 333 VTVFR 337
                         ***98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.4E-22396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.89E-21396IPR015300DNA-binding pseudobarrel domain
CDDcd100171.17E-17596No hitNo description
PfamPF023626.1E-13596IPR003340B3 DNA binding domain
PROSITE profilePS5086313.507598IPR003340B3 DNA binding domain
SMARTSM010191.2E-13698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.106.4E-25236337IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-25237337IPR015300DNA-binding pseudobarrel domain
CDDcd100173.85E-23242337No hitNo description
SMARTSM010191.0E-22244339IPR003340B3 DNA binding domain
PROSITE profilePS5086313.648244339IPR003340B3 DNA binding domain
PfamPF023628.2E-18247337IPR003340B3 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: 350 aa     Download sequence    Send to blast
MPRPFFHKLI LSTTLQDKKL RIPDNFIKKF RDELSVAAAL TVPDGHVWRV GIKKVDNKAW  60
FKEGWQEFVE RYYIRVGYFL IFRYEGNSAF SVSIFDLYNS EINYQTNALV GTQYNLGRQY  120
PFEELEDDEC VSPAMPNLFG RSKLNCINWS GEVNHHAPKG VNNQPIRVKL HSSGAELPKL  180
KKPGRKKQKF QPSEEDSSLG HEDDMEMRNR FYESASARKR IVTAEERERA INAAKAFEPT  240
NPFCRVVLRP SYLYRGCIMY LPSCFAEQHL SGVSGFIKLQ LPDGRQWPVR CLYRGGRAKF  300
SQGWYEFTLE NNLGEGDVCV FELLRSREFV LKVTVFRVME SAGLMDRSQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-7621034015144B3 domain-containing transcription factor VRN1
4i1k_B2e-7621034015144B3 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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012480289.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-153VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2RSI20.0A0A0D2RSI2_GOSRA; Uncharacterized protein
STRINGGorai.005G240900.10.0(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-148B3 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]