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 GSBRNA2T00017484001
Common NameGSBRNA2T00017484001
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: 210aa    MW: 24240.3 Da    PI: 6.5128
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00017484001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding46.96.5e-151663148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         rg W+ +Ed++l+  ++++G ++W++ ++  g+ R++k+c++rw +yl
  GSBRNA2T00017484001 16 RGQWSYDEDLKLISFINKYGHENWRSLPEQAGLLRCGKSCRLRWINYL 63
                         89******************************99************97 PP
2Myb_DNA-binding40.27.9e-1369108142
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcks 42 
                          rg+++ +E+e ++++++  G++ W++Ia++++ gRt++++k+
  GSBRNA2T00017484001  69 RGNFSVDEEETIIKLHQSIGSK-WSKIASKLP-GRTDNEIKN 108
                          89********************.*********.*******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.606.9E-23766IPR009057Homeodomain-like
PROSITE profilePS5129419.1781167IPR017930Myb domain
SuperFamilySSF466894.87E-2714108IPR009057Homeodomain-like
SMARTSM007173.6E-101565IPR001005SANT/Myb domain
PfamPF002494.8E-141663IPR001005SANT/Myb domain
CDDcd001675.57E-81963No hitNo description
Gene3DG3DSA:1.10.10.603.4E-2067109IPR009057Homeodomain-like
SMARTSM007177.7E-868116IPR001005SANT/Myb domain
PROSITE profilePS5129411.97368118IPR017930Myb domain
PfamPF002491.7E-1169108IPR001005SANT/Myb domain
CDDcd001671.47E-671108No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 210 aa     Download sequence    Send to blast
MGKGRAPCCD KTKVKRGQWS YDEDLKLISF INKYGHENWR SLPEQAGLLR CGKSCRLRWI  60
NYLRPDVKRG NFSVDEEETI IKLHQSIGSK WSKIASKLPG RTDNEIKNVT LQEVDKPELL  120
EIPFGVDPEI WSFINGLDSF QQPENSLAPW AHQDSQEDEV EKWFKHLETE LGLEENDSQQ  180
QQSIVMLTKN HRHHHLGELR ALDTPLTKP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-2016108798B-MYB
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.214281e-63stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In nonelongating internodes, highly expressed in interfascicular fibers and xylem cells but not in parenchymatous pith cells. In elongating internodes, predominantly expressed in protoxylem vessels. {ECO:0000269|PubMed:19122102}.
UniprotTISSUE SPECIFICITY: Expressed in leaves (PubMed:9839469). Specifically expressed in fibers and vessels undergoing secondary wall thickening, especially in inflorescence stems (PubMed:19122102). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269|PubMed:19122102}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00017484001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by light (PubMed:9839469). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4934591e-118AB493459.1 Arabidopsis thaliana At1g16490 mRNA for hypothetical protein, partial cds, clone: RAAt1g16490.
GenBankAY0854611e-118AY085461.1 Arabidopsis thaliana clone 152630 mRNA, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018515313.11e-74PREDICTED: myb-related protein Myb4-like
RefseqXP_022543897.11e-74transcription factor MYB58-like
SwissprotQ9SA476e-69MYB58_ARATH; Transcription factor MYB58
TrEMBLA0A078IZB51e-153A0A078IZB5_BRANA; BnaCnng29520D protein
STRINGBra026048.1-P5e-74(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G16490.12e-71myb domain protein 58
Publications ? help Back to Top
  1. 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]
  2. Fernández-Pérez F,Vivar T,Pomar F,Pedreño MA,Novo-Uzal E
    Peroxidase 4 is involved in syringyl lignin formation in Arabidopsis thaliana.
    J. Plant Physiol., 2015. 175: p. 86-94
    [PMID:25506770]
  3. Noda S, et al.
    The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
    Planta, 2015. 242(3): p. 589-600
    [PMID:26070439]
  4. Takeuchi M,Kegasa T,Watanabe A,Tamura M,Tsutsumi Y
    Expression analysis of transporter genes for screening candidate monolignol transporters using Arabidopsis thaliana cell suspensions during tracheary element differentiation.
    J. Plant Res., 2018. 131(2): p. 297-305
    [PMID:28921082]