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_01211.1_g00002.1
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: 1013aa    MW: 112193 Da    PI: 8.3943
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01211.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP126.97.8e-40115191177
                              --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                      SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                              +Cqv++C++dls+ k+yhrrhkvCevhska+++lv +++qrfCqqCsrfh lsefDe+krsCrrrLa+hn+rrrk++
  Rsa1.0_01211.1_g00002.1 115 VCQVDNCSQDLSHGKDYHRRHKVCEVHSKATKALVGKQMQRFCQQCSRFHLLSEFDEGKRSCRRRLAGHNRRRRKTT 191
                              6**************************************************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.103.6E-32109177IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.821113190IPR004333Transcription factor, SBP-box
SuperFamilySSF1036121.96E-36114192IPR004333Transcription factor, SBP-box
PfamPF031103.1E-28116189IPR004333Transcription factor, SBP-box
CDDcd002048.23E-10767901No hitNo description
Gene3DG3DSA:1.25.40.201.4E-8767914IPR020683Ankyrin repeat-containing domain
SuperFamilySSF484031.49E-8772913IPR020683Ankyrin repeat-containing domain
PROSITE profilePS5029710.551810920IPR020683Ankyrin repeat-containing domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0042742Biological Processdefense response to bacterium
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005886Cellular Componentplasma membrane
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 1013 aa     Download sequence    Send to blast
MEEVGGQVAS PIFIHQSLSP MGRKRNLYHH QIPPNRLLPP SQPQHQQWSS NMWDWDSRRF  60
EAKPVEESQV GEEERRGLDL NLGSCLNNAS NALEEEAAAR PSKKGRSGSP GNYPVCQVDN  120
CSQDLSHGKD YHRRHKVCEV HSKATKALVG KQMQRFCQQC SRFHLLSEFD EGKRSCRRRL  180
AGHNRRRRKT THPEEVASGG LVVPGNRDNN TSNANMDLMA LLTALACAQG KNEVRPMGSP  240
AVPQREQLLQ ILNKINALPL PMDLVSKLNN IGSLARKNTD HQVVNPQNDV NGASPSTMDL  300
LAVLSETLGS SSPDALAILS QGGFGTKDND KAKLSSYDHV ATTNLEKITV GGERSSSSNQ  360
SPSQDSDSHA QDTRSSLSLQ LFTSSPEDES RPRKYYSSAS SNPVEDRSPS SSPVMQELFP  420
LQRSPETMRS KNHNNTSPVR TGGCLPLDLF GASNRGAANP NFKGFGQQCG YASSGSDYSP  480
PSLNSDAQDR TGKIVFKLLD KDPSQLPGTL RTEIYNWLSN IPSEMESYIR PGCVVLSVYV  540
AMSPASWEQL EQNLLQRVAV MLQDSHSGFW RNSRFIVNTG RQLASHKNGR IRCSKSWRTW  600
NSPELISVSP VAVVAGEKTS LVVKGRSLTN DGISIRCTHM GSYVSMEATG AASKRAIFDE  660
LNVKCFRVNN AQPGFLGRCF IEVENGFRGD SFPLIIANSS ICKELNRLEE EFHPTEKQAQ  720
TSDHRPTSRE ETLCFLNELG WLFQKNQTTE QPREQSEFSL SRFKFLLVCS VERDFCSVIR  780
TLLDMLVERN VVNDEPNREA LDMLAEIQLL NRAVKRKNKK MVELLIHYSV NLGSSKKLVF  840
LPNITGPGGI TPLHLAACTS DSDDMVDLLT NDPQEIGLSS WNSLCDATGQ TPYSYAAMRN  900
NHTYNSLVAR KLADKTNKQV SLNIESEIVT DQLGPSRRSS TEMNKSSCAS CATVALKYRR  960
RASGSHRLFP TPIIHSMLAV ATVCVCVCVF MHAFPIVRQG SHFSWGGLDY GSI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A3e-30105189184squamosa 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' (By similarity). May play a role in plant development. {ECO:0000250, ECO:0000269|PubMed:15703061}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00155DAPTransfer from AT1G20980Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01211.1_g00002.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3535540.0AK353554.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-52-I08.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018433459.10.0PREDICTED: squamosa promoter-binding-like protein 14
SwissprotQ8RY950.0SPL14_ARATH; Squamosa promoter-binding-like protein 14
TrEMBLA0A3P6FJQ40.0A0A3P6FJQ4_BRAOL; Uncharacterized protein
STRINGBo5g030930.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM39992554
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G20980.10.0squamosa promoter binding protein-like 14
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. Liu J, et al.
    Characterizing Variation of Branch Angle and Genome-Wide Association Mapping in Rapeseed (Brassica napus L.).
    Front Plant Sci, 2016. 7: p. 21
    [PMID:26870051]