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 GSBRNA2T00038356001
Common NameGSBRNA2T00038356001, LOC106367321
Organism
Brassica napus
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: 366aa    MW: 40656.4 Da    PI: 8.872
Description SBP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00038356001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SBP123.87.2e-39163239177
                          --SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS
                  SBP   1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 
                          +Cqv+gC+ dls+ak+yhr+h+vCe+hsk+p+v+vsg+e+rfCqqCsr h++sefDe+krsCr rL++hn+rrrk+q
  GSBRNA2T00038356001 163 RCQVDGCDLDLSSAKDYHRKHRVCETHSKCPKVTVSGVERRFCQQCSRLHAVSEFDEKKRSCRIRLSHHNARRRKSQ 239
                          6**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1100.102.4E-32155225IPR004333Transcription factor, SBP-box
PROSITE profilePS5114131.265161238IPR004333Transcription factor, SBP-box
SuperFamilySSF1036125.49E-36162239IPR004333Transcription factor, SBP-box
PfamPF031103.4E-30164237IPR004333Transcription factor, SBP-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 366 aa     Download sequence    Send to blast
MDCNMRSPLL WDWENLIISN PSNDKKQLTT TTSEWEIEKG EGIESLFPCL DGLQRVSNDS  60
TTSFWHTTSV SKSSQSTSTN SSSPIIKQTK LASENSPGDS CSNIDFVQVK TSTAAESDLC  120
LKLGKRTYSG RDVSPVSTKL LAPCVVTRKK SKSCGQSSMQ VPRCQVDGCD LDLSSAKDYH  180
RKHRVCETHS KCPKVTVSGV ERRFCQQCSR LHAVSEFDEK KRSCRIRLSH HNARRRKSQG  240
VFPFNPERVY DQRQHTNVVW GTTCDTKPTQ RESGFTLSFQ RGNGSKEEQL FASSNHSLSA  300
YQTSGGFSAG KNKFQLGVGE YSEVLHQSQD FHRAFSLLST SSGPLVHPHA QQPLSLLFSF  360
DGVPK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ul4_A3e-25155237484squamosa promoter binding protein-like 4
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1219236KKRSCRIRLSHHNARRRK
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
PlantRegMapGSBRNA2T00038356001
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_013662518.10.0squamosa promoter-binding-like protein 11
RefseqXP_013662519.10.0squamosa promoter-binding-like protein 11
RefseqXP_013662520.10.0squamosa promoter-binding-like protein 11
RefseqXP_013662521.10.0squamosa promoter-binding-like protein 11
SwissprotQ9FZK01e-168SPL11_ARATH; Squamosa promoter-binding-like protein 11
TrEMBLA0A078GQJ00.0A0A078GQJ0_BRANA; BnaA09g27960D protein
STRINGBra032822.1-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
AT1G27360.41e-166squamosa promoter-like 11
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. Stief A, et al.
    Arabidopsis miR156 Regulates Tolerance to Recurring Environmental Stress through SPL Transcription Factors.
    Plant Cell, 2014. 26(4): p. 1792-1807
    [PMID:24769482]
  3. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  4. Liu J, et al.
    The RhoGAP SPIN6 associates with SPL11 and OsRac1 and negatively regulates programmed cell death and innate immunity in rice.
    PLoS Pathog., 2015. 11(2): p. e1004629
    [PMID:25658451]
  5. 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]