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 Carubv10008169m
Common NameCARUB_v10008169mg
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: 1041aa    MW: 115368 Da    PI: 8.1078
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10008169mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP128.62.4e-40133210178
                      --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+++
  Carubv10008169m 133 MCQVDNCTEDLSHAKDYHRRHKVCEVHSKATKALVGKQMQRFCQQCSRFHLLSEFDEGKRSCRRRLAGHNRRRRKTTQ 210
                      6**************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.107.6E-34126195IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.077131208IPR004333Transcription factor, SBP-box
SuperFamilySSF1036125.1E-37132210IPR004333Transcription factor, SBP-box
PfamPF031109.2E-29134207IPR004333Transcription factor, SBP-box
SuperFamilySSF484031.09E-8792937IPR020683Ankyrin repeat-containing domain
CDDcd002041.49E-9792935No hitNo description
Gene3DG3DSA:1.25.40.202.6E-7798931IPR020683Ankyrin repeat-containing domain
PROSITE profilePS502978.773835948IPR020683Ankyrin repeat-containing domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 1041 aa     Download sequence    Send to blast
MDEVGAQVAT PMFIHPSLSP MGRKRDLYYP MSTRLVPSSQ PQPQRRDEWN SKMWDWDSRR  60
FEATPVEAQV LLLGNETQQF DLTSRNKSGE ERGLDLNLGS GLTAEEDTTT TTTQNIRPNK  120
KVRSGSPGGN YPMCQVDNCT EDLSHAKDYH RRHKVCEVHS KATKALVGKQ MQRFCQQCSR  180
FHLLSEFDEG KRSCRRRLAG HNRRRRKTTQ QEEVVVPGNR DNSSNANMDL MALLTALACA  240
QGKNEVKPVT TSPAVPDREQ LLQILTKINA LPLPMDLVSK LNNIGNLARK NLDQPMAHPP  300
NDMNGASPST MDLLAVLSST LGSSSPDTLA ILSQGGFGYK DSDKTKLSSY DHGVATNVEK  360
RTLGFSSGGG ERSSSSNLSP SQDSDSRAQD TRSSLSLQLF TSSPEDESRP TVASSRKYYS  420
SASSNPVEDR SPSSSPVMQE LFPLQTSPET MRSKNHNNSS PRTGCLPLEL FGASNRGTAN  480
TNFKGLGQQS GYASSGSDYS PPSLNSDSQD RTGKIVFKLL DKDPSQLPGT LRSEIYNWLS  540
NIPSEMESYI RPGCVVLSVY IAMAPAAWEQ LERNLLQRLG VLLNNSQSDF WREARFIVNT  600
GRQLASHKNG RVRCSKSWRT WNSPELISVS PVAVVAGEET SLVVRGRSLT NDGISIRCTH  660
MGTYMSMEVT GAACRQAVFD ELNVNSFKVQ NAQPGFLGRC FIEVENGFRG DSFPLIIANA  720
SICEELNRLE EEFHPRSQDT SEEQAQSSDR RPTSREEVMC FLNELGWLFQ KNQTSELREQ  780
SDFSLARFKF LLVCSVERDY CALIRTLLSM LVERNLVDNE LNTEALNMLA ESQLLNRAVK  840
RKSTKMVELL IHYSVKPSSL DSSNNFVFLP NITGPGGITP LHLAACTSGS DDIVDRLTND  900
QQEIGLSSWN TLCDATGQTP YSYAAMRNNH SYNSLVARKL ADKRNKQVSL NIENEIVDQR  960
GVSKRLSSEM NKSSCASCAT VALKYQRRVS GSRRLFPTPI IHSMLAVATV CVCVCVFMHA  1020
FPIVRQGSHF SWGGLDYGSI *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A4e-31124207384squamosa 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10008169m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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_006306653.10.0squamosa promoter-binding-like protein 14
SwissprotQ8RY950.0SPL14_ARATH; Squamosa promoter-binding-like protein 14
TrEMBLR0GUT00.0R0GUT0_9BRAS; Uncharacterized protein
STRINGXP_006306653.10.0(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]