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 XP_009113768.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family SBP
Protein Properties Length: 375aa    MW: 41775.1 Da    PI: 8.554
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009113768.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP126.97.8e-40153229177
                     --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
             SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                     +Cqv+gCe dls+ak+yhr+h+vCe+hsk+p+v+v gle+rfCqqCsr h++sefDe+krsCr+rL++hn+rrrk+q
  XP_009113768.1 153 RCQVDGCELDLSSAKDYHRKHRVCETHSKCPKVTVGGLERRFCQQCSRLHAVSEFDEKKRSCRKRLSHHNARRRKPQ 229
                     6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.103.3E-33146215IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.949151228IPR004333Transcription factor, SBP-box
SuperFamilySSF1036122.75E-37152229IPR004333Transcription factor, SBP-box
PfamPF031101.1E-30154227IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010358Biological Processleaf shaping
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 375 aa     Download sequence    Send to blast
MDCNMTSPLW DWDHFLMSNP SKPDNDKRQP SSEWGIEKGE GIESIFPSFE RVSSGGSTTG  60
FSTNSSSPIF RHANLPSETS PGDSFSNIDF VQVKTSTAES DLCLKLGKQT YSEDFWGRSN  120
NEVSAVSVKL LAPSVVARKK SKPYGQSSMQ VPRCQVDGCE LDLSSAKDYH RKHRVCETHS  180
KCPKVTVGGL ERRFCQQCSR LHAVSEFDEK KRSCRKRLSH HNARRRKPQG VFPLNPERNC  240
NGRQHPNMLW NGLSLNTVPD EKYVWSPSYD TKPTQMESGF TLSFQRGRGP EEHLYAGSSR  300
SFSTFQTSGG FSAGRSNSQL PGKGVGEYXG GLHESQDFYS ALSLLSTSSD SHGTKHNPMV  360
EPQPTTHGTF PTHFI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A1e-251542271184squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1209226KKRSCRKRLSHHNARRRK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.321330.0flower
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed constitutively during plant development, weak increase during flowering. {ECO:0000269|PubMed:10524240, ECO:0000269|PubMed:14573523}.
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
PlantRegMapXP_009113768.1
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
GenBankAC1896490.0AC189649.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrS010I09, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013697208.10.0squamosa promoter-binding-like protein 10 isoform X2
SwissprotQ8S9L00.0SPL10_ARATH; Squamosa promoter-binding-like protein 10
TrEMBLA0A397Y6310.0A0A397Y631_BRACM; Uncharacterized protein
STRINGBra032823.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM50041653
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G27370.41e-166squamosa promoter binding protein-like 10
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Yu N,Niu QW,Ng KH,Chua NH
    The role of miR156/SPLs modules in Arabidopsis lateral root development.
    Plant J., 2015. 83(4): p. 673-85
    [PMID:26096676]
  3. 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]
  4. Gao R,Wang Y,Gruber MY,Hannoufa A
    miR156/SPL10 Modulates Lateral Root Development, Branching and Leaf Morphology in Arabidopsis by Silencing AGAMOUS-LIKE 79.
    Front Plant Sci, 2017. 8: p. 2226
    [PMID:29354153]
  5. Dotto M,Gómez MS,Soto MS,Casati P
    UV-B radiation delays flowering time through changes in the PRC2 complex activity and miR156 levels in Arabidopsis thaliana.
    Plant Cell Environ., 2018. 41(6): p. 1394-1406
    [PMID:29447428]