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 Carubv10020369m
Common NameCARUB_v10020369mg
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: 416aa    MW: 46842.9 Da    PI: 6.5693
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10020369mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP135.22.1e-42137212277
                      -SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
              SBP   2 CqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                      Cqv gC++dl++ k+yh+rh+vCe+hsk++vv+v+gleqrfCqqCsrfh lsefD++krsCrrrLa+hnerrrk++
  Carubv10020369m 137 CQVYGCNMDLTSSKDYHKRHRVCETHSKTSVVIVNGLEQRFCQQCSRFHFLSEFDDGKRSCRRRLAGHNERRRKPA 212
                      **************************************************************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.101.6E-33132198IPR004333Transcription factor, SBP-box
PROSITE profilePS5114132.881134211IPR004333Transcription factor, SBP-box
SuperFamilySSF1036126.93E-40135214IPR004333Transcription factor, SBP-box
PfamPF031101.8E-32137210IPR004333Transcription 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: 416 aa     Download sequence    Send to blast
MDSWSYGRNV YLENGALLPS DSFAENRKFG QSLSNGLEND DHVLISDMAG DSNGYGAVSI  60
TKVVPSNLLH EDEEEKQEEE EKQSSSSKLT SQELTRIDFK LRSFLDLGND DDTSSRGFAL  120
PAKKPRASNL CSQKPLCQVY GCNMDLTSSK DYHKRHRVCE THSKTSVVIV NGLEQRFCQQ  180
CSRFHFLSEF DDGKRSCRRR LAGHNERRRK PAFYFLPGKR HKLLRTSQGV VGNSSVSDFS  240
LVLPEEFPST FLYRVLDEHD HRASRLVSFK DEPTCSMFPA IGQNSSSIYE SKPAIYSPEV  300
SSIWDLHESA SRSTCALSLL SAQSQQNIPE IPNTTFSITQ PNQNPNHSPV DYNQMQRLWI  360
DPSKTNSAGS SSCTLKGSST VDLLQLSSHL QRIEQQRNYT DDVKQEYNEL YFTGS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-301362101084squamosa 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
PlantRegMapCarubv10020369m
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
GenBankAF3706120.0AF370612.1 Arabidopsis thaliana similar to squamosa-promoter binding protein 1 isolog gi|1707009 (F4N2.13) mRNA, complete cds.
GenBankAJ0116430.0AJ011643.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 6.
GenBankAK2279640.0AK227964.1 Arabidopsis thaliana mRNA for squamosa promoter binding protein-like 6, complete cds, clone: RAFL14-51-E10.
GenBankBT0064360.0BT006436.1 Arabidopsis thaliana At1g69170 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006300490.10.0squamosa promoter-binding-like protein 6 isoform X2
RefseqXP_023644067.10.0squamosa promoter-binding-like protein 6 isoform X2
SwissprotQ94JW80.0SPL6_ARATH; Squamosa promoter-binding-like protein 6
TrEMBLR0IA100.0R0IA10_9BRAS; Uncharacterized protein
STRINGXP_006300490.10.0(Capsella rubella)
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
AT1G69170.10.0SBP 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]