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_01094.1_g00010.1
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: 321aa    MW: 35642.8 Da    PI: 8.9047
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01094.1_g00010.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP94.78.7e-3056126178
                              --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
                      SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                              +CqvegC++dls+ak+y++rhkvC vhsk+++v+vsgl+qr       fh+lsefD ekrsCrrrLa hnerrrk+qa
  Rsa1.0_01094.1_g00010.1  56 RCQVEGCRMDLSNAKTYYSRHKVCCVHSKSSKVIVSGLHQR-------FHQLSEFDLEKRSCRRRLACHNERRRKPQA 126
                              6**************************************97.......7**************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.102.6E-2150111IPR004333Transcription factor, SBP-box
PROSITE profilePS5114123.58154124IPR004333Transcription factor, SBP-box
SuperFamilySSF1036127.06E-2955128IPR004333Transcription factor, SBP-box
PfamPF031103.6E-1957123IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008361Biological Processregulation of cell size
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0042127Biological Processregulation of cell proliferation
GO:0048653Biological Processanther development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 321 aa     Download sequence    Send to blast
MELLKSSGQN QPESAGSSST LSGGLRFGQK IYFEDGSGAG LSKNRVNAGR KSMTARCQVE  60
GCRMDLSNAK TYYSRHKVCC VHSKSSKVIV SGLHQRFHQL SEFDLEKRSC RRRLACHNER  120
RRKPQATTTL LTSRFASIAP SLYGNAIRGV LGDPATWSTT ARGSAPWQSH QLMNVFSYGN  180
SSFTNSTDSS CALSLLSNSN PTQQEQQPLQ TPTTTWRPSL DFDSVVADRV TMAQPPPVSI  240
QNQYLNQTWE FMSGEKSNEH CISPALGLNQ ISEPVDFQIS NGTTTMGGFE LSLHQQVLRQ  300
YLEPENTRAY DSPPQQFNWS L
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-20571231184squamosa 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00412DAPTransfer from AT3G57920Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01094.1_g00010.1
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1894451e-135AC189445.2 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_018445714.10.0PREDICTED: squamosa promoter-binding-like protein 15
RefseqXP_018446184.10.0PREDICTED: squamosa promoter-binding-like protein 15
SwissprotS4WUL11e-152SPL15_ARAAL; Squamosa promoter-binding protein-like 15
TrEMBLA0A0D3CUG00.0A0A0D3CUG0_BRAOL; Uncharacterized protein
STRINGBo6g073290.10.0(Brassica oleracea)
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. 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]
  2. 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]