PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00098900001
Common NameGSBRNA2T00098900001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family SBP
Protein Properties Length: 317aa    MW: 35239.1 Da    PI: 9.5071
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00098900001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP94.69.5e-3058128178
                          --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                  SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                          +CqvegC++dls+ak+y++rhkvC +hsk+++v+vsgl+qr       fh+lsefD ekrsCrrrLa hnerrrk+qa
  GSBRNA2T00098900001  58 RCQVEGCRMDLSNAKTYYSRHKVCCIHSKSSKVIVSGLHQR-------FHQLSEFDLEKRSCRRRLACHNERRRKPQA 128
                          6**************************************97.......7**************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.107.0E-2155113IPR004333Transcription factor, SBP-box
PROSITE profilePS5114123.51256126IPR004333Transcription factor, SBP-box
SuperFamilySSF1036126.93E-2957130IPR004333Transcription factor, SBP-box
PfamPF031103.8E-1959125IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 317 aa     Download sequence    Send to blast
MELLTGSGQN QPDSAGSSSS TLSGGLRFGQ KIYFEDGSGA GSSKNRVNST SRKLMTARCQ  60
VEGCRMDLSN AKTYYSRHKV CCIHSKSSKV IVSGLHQRFH QLSEFDLEKR SCRRRLACHN  120
ERRRKPQATT TLLTSHYSPS LYGNAIRSVL GDPTRWSTTR GSAPWQSHQL MNVFSYGSSG  180
FTNSTDSSCA LSLLSNYTNQ NQQEQQQLQT PTNTWRPSSI AADRVTMAQR PPVSVQNQYL  240
NQTLEFMSGE KSNAQYTTPV LGLSQISEPV VDFQISNGAT MGGFELSLHQ QVLRQYMEPD  300
NTRAYDSSPQ QFNWSL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A2e-20591251184squamosa promoter binding protein-like 4
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor required for the flowering response to vernalization in the shoot apical meristem (SAM) (PubMed:30679374). Defines the competence of shoot meristems to flower in response to vernalization in perennials (PubMed:30679374). {ECO:0000269|PubMed:30679374}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00098900001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced in the shoot apical meristem (SAM) during vernalization. {ECO:0000269|PubMed:30679374}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894450.0AC189445.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB070L01, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013648383.10.0squamosa promoter-binding-like protein 15
SwissprotS4WUL11e-149SPL15_ARAAL; Squamosa promoter-binding protein-like 15
TrEMBLM4CGH20.0M4CGH2_BRARP; Uncharacterized protein
STRINGBra003305.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM21442775
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57920.11e-135squamosa promoter binding protein-like 15
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. Willing EM, et al.
    Genome expansion of Arabis alpina linked with retrotransposition and reduced symmetric DNA methylation.
    Nat Plants, 2015. 1: p. 14023
    [PMID:27246759]
  3. Hyun Y, et al.
    A regulatory circuit conferring varied flowering response to cold in annual and perennial plants.
    Science, 2019. 363(6425): p. 409-412
    [PMID:30679374]