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 GSBRNA2T00101976001
Common NameGSBRNA2T00101976001
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: 300aa    MW: 33968.7 Da    PI: 8.7262
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00101976001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP135.22e-4268143277
                          -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                  SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                          Cqv+gC++dls+ k+yh+rh+vCe+hsk++vv+v+g+eqrfCqqCsrfh lsefD++krsCrrrLa+hnerrrk++
  GSBRNA2T00101976001  68 CQVHGCNMDLSSSKDYHKRHRVCEAHSKTSVVIVNGVEQRFCQQCSRFHFLSEFDNGKRSCRRRLAGHNERRRKPS 143
                          **************************************************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.4E-3461129IPR004333Transcription factor, SBP-box
PROSITE profilePS5114133.01865142IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.35E-3966145IPR004333Transcription factor, SBP-box
PfamPF031106.8E-3368141IPR004333Transcription 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: 300 aa     Download sequence    Send to blast
MDSWSYGTSF LPSDSFPENP RSLAQGLSNE FDKVDDRIDF KVRSFMDYGN YDGSRAKKPR  60
ASSSSPLCQV HGCNMDLSSS KDYHKRHRVC EAHSKTSVVI VNGVEQRFCQ QCSRFHFLSE  120
FDNGKRSCRR RLAGHNERRR KPSFYFRHKL LPQGTNSLAG NKVHGRLVSF KDEPMFPAEN  180
MSFYSPEAAA SSGVSSIWDL HEAGPPRSTC AHSLLSAQSQ QCLSETSPNK SFSITQPNQT  240
LNHSTIGYHQ MQPPPLRTVS SSTVDLQQLS SHLQRIEQQQ RSFTNDDVKQ EYNNELYFP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A3e-3161141484squamosa promoter binding protein-like 4
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed constitutively during plant development, weak increase during flowering. {ECO:0000269|PubMed:10524240, ECO:0000269|PubMed:14573523}.
Functional Description ? help Back to Top
Source Description
UniProtTrans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00101976001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305|PubMed:12202040}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892980.0AC189298.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB028I01, complete sequence.
GenBankAC1894580.0AC189458.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB073F16, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013652318.10.0squamosa promoter-binding-like protein 6
RefseqXP_022544849.10.0squamosa promoter-binding-like protein 6
SwissprotQ94JW81e-107SPL6_ARATH; Squamosa promoter-binding-like protein 6
TrEMBLA0A3P6B9760.0A0A3P6B976_BRACM; Uncharacterized protein
STRINGBra004363.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM92752435
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69170.13e-96SBP family protein
Publications ? help Back to Top
  1. Jorgensen SA,Preston JC
    Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis.
    Mol. Phylogenet. Evol., 2014. 73: p. 129-39
    [PMID:24508602]
  2. 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]
  3. Xu M, et al.
    Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana.
    PLoS Genet., 2016. 12(8): p. e1006263
    [PMID:27541584]