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 Rsa1.0_00829.1_g00019.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family SBP
Protein Properties Length: 339aa    MW: 38649.8 Da    PI: 8.5467
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00829.1_g00019.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP133.66.4e-4295170277
                              -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++
  Rsa1.0_00829.1_g00019.1  95 CQVYGCNMDLSFSKDYHKRHRVCEAHSKTSVVIVSGTEQRFCQQCSRFHFLSEFDDGKRSCRRRLAGHNERRRKPS 170
                              **************************************************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.109.1E-3390156IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.62492169IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.57E-3993172IPR004333Transcription factor, SBP-box
PfamPF031107.5E-3295168IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010468Biological Processregulation of gene expression
GO:0042742Biological Processdefense response to bacterium
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 339 aa     Download sequence    Send to blast
MDSWSYGRSV FLANGSDSFA ENQRFIPGFE QGLSPGFVDS SSSCVAEENQ SSNLSRIDFK  60
LRSFMDYGNH HHDGTSSSLQ AKKTLRAACS QSPLCQVYGC NMDLSFSKDY HKRHRVCEAH  120
SKTSVVIVSG TEQRFCQQCS RFHFLSEFDD GKRSCRRRLA GHNERRRKPS FYFLPGKRHK  180
LLPQESFPGS FLYRVVDEHD HHRPSRLVSF KDEPKQESGV SYIWDLQEAV PPPPRSTCAL  240
SLLSAQSQPE TNPNKSFSIT QPNQSFNHST VDYYHQMQPL RIDPGKKTKS VTSSSSCNGN  300
GSSTVDLVQL SSHLQRIQQQ QRTFTDEVKQ EYNEFYFPS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A5e-30941681084squamosa promoter binding protein-like 4
Search in ModeBase
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
PlantRegMapRsa1.0_00829.1_g00019.1
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
GenBankAC1892984e-92AC189298.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB028I01, complete sequence.
GenBankAC1894584e-92AC189458.2 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_018453510.10.0PREDICTED: squamosa promoter-binding-like protein 6 isoform X2
SwissprotQ94JW81e-137SPL6_ARATH; Squamosa promoter-binding-like protein 6
TrEMBLA0A0D3AP841e-174A0A0D3AP84_BRAOL; Uncharacterized protein
STRINGBo2g062840.11e-175(Brassica oleracea)
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-129SBP 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. 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]