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.002G006500.1
Common NameB456_002G006500, LOC105773078
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: 354aa    MW: 40567.1 Da    PI: 9.1989
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.002G006500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3512.5e-16595197
                        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 +  rk+++++++++GW eF +   ++ g f++F+++g+s f   
  Gorai.002G006500.1  5 FFHKLILSSTLQDKKLRIPDNFVKKFKDE--LSVAAALTVPDGHVWRVGI--RKGDNKVWFQEGWPEFLDRYYIRIGYFLIFRYEGNSAF--S 91
                        8899999****************999755..99*****************..**********************************9999..8 PP

                        EEEE CS
                  B3 94 vkvf 97
                        v++f
  Gorai.002G006500.1 92 VSIF 95
                        8887 PP
2B361.91.1e-19248337498
                         E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
                  B3   4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                         vl ps+  + ++++lp  fae+ +g++     ++l+ ++g++W+v++ yr+++ +  +++GW eF  +n+L egD++vF+l +++ef l+v
  Gorai.002G006500.1 248 VLRPSYLYRGCIMYLPSCFAEHLSGVSG---FIKLQLPDGKQWSVRCLYRGGKAK--FSQGWYEFTVENNLGEGDVCVFELLRSREFVLKV 333
                         78899***************88888854...4***************77777755..89**********************999******* PP

                         EEE- CS
                  B3  95 kvfr 98 
                         +vfr
  Gorai.002G006500.1 334 TVFR 337
                         **98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.107.7E-21396IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.89E-20396IPR015300DNA-binding pseudobarrel domain
CDDcd100178.39E-17596No hitNo description
PfamPF023621.9E-13595IPR003340B3 DNA binding domain
PROSITE profilePS5086313.352598IPR003340B3 DNA binding domain
SMARTSM010193.3E-13698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.9E-22237337IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.53E-22238337IPR015300DNA-binding pseudobarrel domain
CDDcd100171.98E-22243337No hitNo description
PROSITE profilePS5086313.028245339IPR003340B3 DNA binding domain
SMARTSM010198.3E-23245339IPR003340B3 DNA binding domain
PfamPF023622.5E-17248337IPR003340B3 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: 354 aa     Download sequence    Send to blast
MPRPFFHKLI LSSTLQDKKL RIPDNFVKKF KDELSVAAAL TVPDGHVWRV GIRKGDNKVW  60
FQEGWPEFLD RYYIRIGYFL IFRYEGNSAF SVSIFNLYNS EINYQSNALL GSQYNHGKSY  120
PFDELEDDEC MSSAMQHLFG GSKLNHCVNW SGEVNLNAAK SANNQPIRVK LRTSGSETPP  180
PKKPGRKKQK FDPNDQDLSV GHEDDSEMRY RFYESASARK RTVTAEERER AMNAAKAFEP  240
SNPFCRVVLR PSYLYRGCIM YLPSCFAEHL SGVSGFIKLQ LPDGKQWSVR CLYRGGKAKF  300
SQGWYEFTVE NNLGEGDVCV FELLRSREFV LKVTVFRVMD GAGLMHRSQY NAN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A4e-7221133815142B3 domain-containing transcription factor VRN1
4i1k_B4e-7221133815142B3 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_012450169.10.0PREDICTED: B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W11e-154VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A0D2M5140.0A0A0D2M514_GOSRA; Uncharacterized protein
STRINGGorai.002G006500.10.0(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-149B3 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]