Basic Information
Gene Model:Bol039279
Gene Family:Plant Defensins Gene Families
Chromosome:C02
Scaffold:Scaffold000017
Sequence:
 | 
Gene Structure
Nucleotide Length:335 bp
Transcript Length:243 bp
Protein Length:80 aa
Strand:+
Location:C02: 18552559 : 18552893
Gene CDSs(2): 1-179 | 272-335 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
PatternScanPS00940GAMMA_THIONIN 31 54 NAIPR008176Gamma thionin
HMMSmartSM00505no description 32 80 1.8e-10IPR003614Knottin
HMMPfamPF00304Gamma-thionin 31 80 1.8e-22IPR008176Gamma thionin
Segsegseg 4 23 NANot foundNot found
Gene3DG3DSA:3.30.30.10no description 30 80 1.1e-16Not foundNot found
superfamilySSF57095Scorpion toxin-like 30 80 4.6e-14Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0006952 Biological Process defense response
Swiss-Prot
Best HitE_value Description
P692414e-32DEF1_RAPSA Defensin-like protein 1 OS=Raphanus sativus GN=AFP1 PE=1 SV=1
TrEMBL
Best HitE_value Description
Q29SA63e-32Q29SA6_ARAHA Putative plant defensin PDF1.1 OS=Arabidopsis halleri PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description

Note: this gene was not detected its best hit in KEGG database.

Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL5974(10 genes,3 taxa):Arabidopsis thalianaAT2G26010.1
ORTHOMCL5974(10 genes,3 taxa):Arabidopsis thalianaAT2G26020.1
ORTHOMCL5974(10 genes,3 taxa):Arabidopsis thalianaAT5G44420.1
ORTHOMCL5974(10 genes,3 taxa):Arabidopsis thalianaAT5G44430.1
ORTHOMCL5974(10 genes,3 taxa):Brassica oleraceaBol039279
ORTHOMCL5974(10 genes,3 taxa):Brassica rapaBra003740
ORTHOMCL5974(10 genes,3 taxa):Brassica rapaBra008225
ORTHOMCL5974(10 genes,3 taxa):Brassica rapaBra008226
ORTHOMCL5974(10 genes,3 taxa):Brassica rapaBra015809
ORTHOMCL5974(10 genes,3 taxa):Brassica rapaBra015811
Tandem Duplication
ClusterGene Num.Gene List

The tandem genes of this gene was not detected with strict parameters, so there is no information collected in Bolbase.

Synteny Analysis
Synteny Genes
Compared to A.thaliana Compared to B.rapa
Synteny Regions
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC02:17696373..18938805 (+)A.thalianaChr1:6622094..7160526 (+)31
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC02:16467816..18683313 (+)B.rapaA08:2334160..2866262 (-)25
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block

Note: this gene was no corresponding triplicated genes.

 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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