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 GSBRNA2T00096385001
Common NameGSBRNA2T00096385001
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: 329aa    MW: 37087.3 Da    PI: 8.9092
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00096385001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP133.57.1e-4290165277
                          -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+vsg+eqrfCqqCsrfh lsefD++krsCrrrLa+hnerrrk++
  GSBRNA2T00096385001  90 CQVYGCNMDLSFSKDYHKRHRVCEAHSKSSVVIVSGVEQRFCQQCSRFHFLSEFDDGKRSCRRRLAGHNERRRKPS 165
                          **************************************************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.105.9E-3385151IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.6587164IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.12E-3988167IPR004333Transcription factor, SBP-box
PfamPF031104.5E-3290163IPR004333Transcription 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: 329 aa     Download sequence    Send to blast
MDSWSYGRSV FLPNGTIAEN QSSMPGFEME TSDGFITKVA SSSYLEENQS SNLSRIDFKF  60
RSYENHGGTS TLPSKKTRAS NSCLQSPPLC QVYGCNMDLS FSKDYHKRHR VCEAHSKSSV  120
VIVSGVEQRF CQQCSRFHFL SEFDDGKRSC RRRLAGHNER RRKPSFYFLP GKRHKLLPQE  180
SFPGSFLYDH RASSLVSFKD EPKPAMEASG VSYIWDLQEA VPRSTCALSL LSAQSQQHLS  240
ANNPNKSFSI TQPSQNLNHS TGDYHQMQPL RIDPGKKTKS VTSSSSCNGN GSSTVDLLQL  300
SSHLQRIQQQ QRTFTDDVKQ EYNELYFP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A7e-31891631084squamosa 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
PlantRegMapGSBRNA2T00096385001
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
GenBankAC1892982e-90AC189298.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB028I01, complete sequence.
GenBankAC1894582e-90AC189458.2 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_009127706.10.0PREDICTED: squamosa promoter-binding-like protein 6
SwissprotQ94JW81e-139SPL6_ARATH; Squamosa promoter-binding-like protein 6
TrEMBLA0A078IH890.0A0A078IH89_BRANA; BnaA02g14580D protein
STRINGBra038324.1-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
AT1G69170.11e-119SBP 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]