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 GSBRNA2T00111493001
Common NameGSBRNA2T00111493001
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: 120aa    MW: 13908 Da    PI: 10.7887
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00111493001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding54.62.5e-171764148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         rg+W+ eE e+l+  + ++G ++W++ ++  g++R++k+c++rw++yl
  GSBRNA2T00111493001 17 RGPWSDEESERLKAFILKHGHHNWRSLPKLAGLTRCGKSCRLRWLNYL 64
                         89*********************************************7 PP
2Myb_DNA-binding33.69e-1170107136
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHT...TTS- CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmg...kgRt 36 
                          rg++T+eE++ ++++++ lG++ W++Ia++++   ++R+
  GSBRNA2T00111493001  70 RGSFTKEEEDTIIHLHQVLGNK-WSKIASHLQeeqTTRS 107
                          89********************.*********8877776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.601.1E-201167IPR009057Homeodomain-like
PROSITE profilePS5129422.1471268IPR017930Myb domain
SMARTSM007171.5E-121666IPR001005SANT/Myb domain
SuperFamilySSF466892.33E-2416101IPR009057Homeodomain-like
PfamPF002491.8E-151764IPR001005SANT/Myb domain
CDDcd001675.50E-91964No hitNo description
Gene3DG3DSA:1.10.10.608.1E-1668100IPR009057Homeodomain-like
SMARTSM007170.001169115IPR001005SANT/Myb domain
PROSITE profilePS5129410.10769119IPR017930Myb domain
PfamPF002499.2E-1070108IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 120 aa     Download sequence    Send to blast
MGKRRTPCCD NSQVLKRGPW SDEESERLKA FILKHGHHNW RSLPKLAGLT RCGKSCRLRW  60
LNYLRPGLKR GSFTKEEEDT IIHLHQVLGN KWSKIASHLQ EEQTTRSRMC GTLISRNDR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A7e-171599588B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in cauline leaves and siliques. {ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtInvolved in metal ions homeostasis, including iron ions (Fe) acquisition, via the regulation of NAS4 and NAS2 genes expression. Necessary for plant survival in alkaline soil where iron availability is greatly restricted. Triggers tolerance to nickel (Ni) and zinc (Zn) ions. {ECO:0000269|PubMed:24278034}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00111493001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Accumulates strongly in the root stele and in the outer layers of the lateral roots when exposed to iron (Fe)-deficient conditions (PubMed:24278034). Slightly induced by ethylene and by darkness conditions (PubMed:9839469). Accumulates upon potassium (K) depletion (PubMed:15489280). Induced by zinc (Zn) and cadmium (Cd) ions (PubMed:18088336). {ECO:0000269|PubMed:15489280, ECO:0000269|PubMed:18088336, ECO:0000269|PubMed:24278034, 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
GenBankAY5195861e-112AY519586.1 Arabidopsis thaliana MYB transcription factor (At3g12820) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009135252.11e-68PREDICTED: myb-related protein Myb4-like
SwissprotQ9LTV47e-57MYB10_ARATH; Transcription factor MYB10
TrEMBLM4CB921e-67M4CB92_BRARP; Uncharacterized protein
STRINGBra001472.1-P2e-68(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
AT3G12820.13e-59myb domain protein 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. 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]