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 Carubv10012577m
Common NameCARUB_v10012577mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family SBP
Protein Properties Length: 1038aa    MW: 114944 Da    PI: 8.5005
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10012577mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP128.62.3e-40132209178
                      --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS
              SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 
                      +Cqv++C++dls+ak+yhrrhkvCevhska+++lv +++qrfCqqCsrfh lsefDe+krsCrrrLa+hn+rrrk+++
  Carubv10012577m 132 MCQVDNCTEDLSHAKDYHRRHKVCEVHSKATKALVGKQMQRFCQQCSRFHLLSEFDEGKRSCRRRLAGHNRRRRKTTQ 209
                      6**************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.107.5E-34125194IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.077130207IPR004333Transcription factor, SBP-box
SuperFamilySSF1036125.1E-37131209IPR004333Transcription factor, SBP-box
PfamPF031109.2E-29133206IPR004333Transcription factor, SBP-box
CDDcd002046.18E-11789932No hitNo description
SuperFamilySSF484037.69E-9789936IPR020683Ankyrin repeat-containing domain
Gene3DG3DSA:1.25.40.203.7E-8791939IPR020683Ankyrin repeat-containing domain
PROSITE profilePS502979.357873945IPR020683Ankyrin 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:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 1038 aa     Download sequence    Send to blast
MDEVGAQVAT PMFIHPSLSP MGRKRDLYYP MSNRLVPSQP QPQRRDEWNS KMWDWDSRRF  60
EATPVDAQTL RLGNETQQFD LTSKNRSGET RGLDLNLGSG LTAVEDTTTT TTQNIRPNKK  120
VRSGSPGGNY PMCQVDNCTE DLSHAKDYHR RHKVCEVHSK ATKALVGKQM QRFCQQCSRF  180
HLLSEFDEGK RSCRRRLAGH NRRRRKTTQQ EEVVVPGNRD NSSNANMDLM ALLTALACAQ  240
GKNEVKPVTT SPAVPDREQL LQILTKINAL PLPMDLVSKL NNIGNLARKN LDQPTTNPPN  300
DMNGASPSTM DLLAVLSSTL GSSSPDTLAI LSQGGFGYKD SDKTKLSSYD HGVATNVEKR  360
TLGFSSGGGE RSSSSNLSPS QDSDSRAQDT RSSLSLQLFT SSPEDESRPT VASSRKYYSS  420
ASSNPVEDRS PSSSPVMQEL FPLQTSPETM RSKNHNNSSP RTGCLPLELF GASNRGTANT  480
NFKGFGQQSG YASSGSDYSP PSLNSDAQDR TGKIVFKLLD KDPSQLPGTL RSEIYNWLSN  540
IPSEMESYIR PGCVVLSVYI AMTPAAWEQL ERNLLQRLGV LLQNSQSDFW REARFIVNTG  600
RQLASHKNGR VRCSKSWRTW NSPELISISP IAVVAGAETS LVLRGRSLTN DGISIRCTHM  660
GTYMSMEVIG AGCRQAVFDE LNVNNFKVQN AQPGFLGRCF IEVENGFRGD SFPLIIANAS  720
ICKELNRLEE EFHPKSPSEE QAQSSDRRPT SREEVLCFLN ELGWLFQKNQ TSELREQSDF  780
SLARFKFLLV CSVERDYCAL IRTLLDMLVE RNLVNNELNT EALNMLAESQ LLNRAVKRKS  840
TKMVELLIHY PVNPSALKSS NNFVFLPNIT GPGGITPLHL AACTSGSDDM VDLLTNDSQE  900
VGLSSWNTLC DAAGQTPYSY AAMRNNHSYN SLVARKLADK RNKQVSLNIE NEIVDQRGMS  960
KRLSSEMNKS SCASCATVAL KYQRRVSGSH RLFPTPIIHS MLAVATVCVC VCVFMHAFPI  1020
VRQGSHFSWG GLDYGSI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A4e-31123206384squamosa 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
PlantRegMapCarubv10012577m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2269070.0AK226907.1 Arabidopsis thaliana mRNA for squamosa promoter binding protein-like 14, clone: RAFL09-16-H09.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006303847.10.0squamosa promoter-binding-like protein 14
SwissprotQ8RY950.0SPL14_ARATH; Squamosa promoter-binding-like protein 14
TrEMBLR0IEQ30.0R0IEQ3_9BRAS; Uncharacterized protein
STRINGXP_006303847.10.0(Capsella rubella)
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]