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 GSBRNA2T00016229001
Common NameGSBRNA2T00016229001
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 MYB
Protein Properties Length: 158aa    MW: 18245.7 Da    PI: 11.2255
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00016229001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding57.43.3e-18449147
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                         rg W + Ede+l ++v+q+G+++W++Ia+++  gR++k+c++rw++ 
  GSBRNA2T00016229001  4 RGHWRPAEDEKLRELVEQFGPHNWNAIAQKLS-GRSGKSCRLRWFNQ 49
                         899*****************************.***********996 PP
2Myb_DNA-binding54.82.1e-175699146
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                         r+++T++E+e+l+  ++ +G++ W+ Iar ++ gRt++ +k++w+ 
  GSBRNA2T00016229001 56 RNPFTEDEEERLLASHRIHGNR-WSVIARFFP-GRTDNAVKNHWHV 99
                         789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129425.17154IPR017930Myb domain
SMARTSM007175.8E-15352IPR001005SANT/Myb domain
SuperFamilySSF466893.29E-30497IPR009057Homeodomain-like
PfamPF002493.4E-17449IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.8E-27557IPR009057Homeodomain-like
CDDcd001672.21E-13748No hitNo description
PROSITE profilePS5129418.12255105IPR017930Myb domain
SMARTSM007175.5E-1555103IPR001005SANT/Myb domain
PfamPF002492.7E-145698IPR001005SANT/Myb domain
CDDcd001671.50E-115898No hitNo description
Gene3DG3DSA:1.10.10.608.9E-2158103IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 158 aa     Download sequence    Send to blast
MCSRGHWRPA EDEKLRELVE QFGPHNWNAI AQKLSGRSGK SCRLRWFNQL NPRINRNPFT  60
EDEEERLLAS HRIHGNRWSV IARFFPGRTD NAVKNHWHVI MARRGRELSK LRPRGLGHDG  120
TTAATIGYDG CDKKRRLATA STISYPHQFS HISHCLR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A4e-3241047107B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in stamen (PubMed:19325888). Present in roots and siliques, and, at low levels, in leaves and flowers (PubMed:21399993). Expressed in stems, especially in fibers and, at lower levels, in xylems (PubMed:18952777, PubMed:21399993). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:19325888, ECO:0000269|PubMed:21399993}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought (PubMed:21399993). Regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers (PubMed:18952777, PubMed:23781226). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:23781226}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00016229001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (PubMed:16463103, PubMed:21399993). Accumulates in response to salt (PubMed:21399993). Triggered by MYB46 and MYB83 in the regulation of secondary cell wall biosynthesis (PubMed:19674407, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19674407, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:22197883}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0866721e-147AY086672.1 Arabidopsis thaliana clone 267121 mRNA, complete sequence.
GenBankAY5195541e-147AY519554.1 Arabidopsis thaliana MYB transcription factor (At1g17950) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009117637.11e-112PREDICTED: transcription factor MYB44-like
RefseqXP_013660229.11e-112transcription factor MYB52-like
SwissprotQ6R0C41e-100MYB52_ARATH; Transcription factor MYB52
TrEMBLA0A078GAI71e-113A0A078GAI7_BRANA; BnaA09g44790D protein
STRINGBra031008.1-P1e-111(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM28182769
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17950.11e-102myb domain protein 52
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. Cassan-Wang H, et al.
    Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.
    Front Plant Sci, 2013. 4: p. 189
    [PMID:23781226]
  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. Shi D, et al.
    MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage.
    Plant Physiol., 2018. 176(4): p. 2737-2749
    [PMID:29440562]