Basic Information
Gene Model:Bol043832
Gene Family:Not classificated
Chromosome:C09
Scaffold:Scaffold000004
Sequence:
 | 
Gene Structure
Nucleotide Length:4012 bp
Transcript Length:2112 bp
Protein Length:703 aa
Strand:+
Location:C09: 37942026 : 37946037
Gene CDSs(11): 1-123 | 192-251 | 350-452 | 537-1137 | 1223-1349 | 1459-1626 | 2730-3236 | 3309-3402 | 3483-3613 | 3715-3812 | 3913-4012 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPfamPF00835SNAP-25 581 642 1.2e-08IPR000928SNAP-25
HMMPfamPF05739SNARE 643 703 5.1e-12IPR000727Target SNARE coiled-coil region
HMMPantherPTHR19305SYNAPTOSOMAL ASSOCIA 466 703 3.5e-51Not foundNot found
HMMSmartSM00397no description 633 700 4.3e-07IPR000727Target SNARE coiled-coil region
HMMSmartSM00397no description 504 571 2.2IPR000727Target SNARE coiled-coil region
Segsegseg 337 362 NANot foundNot found
Segsegseg 416 431 NANot foundNot found
Segsegseg 645 658 NANot foundNot found
Segsegseg 138 161 NANot foundNot found
Segsegseg 2 20 NANot foundNot found
Coilcoilcoiled-coil 327 373 NANot foundNot found
Coilcoilcoiled-coil 669 704 NANot foundNot found
Coilcoilcoiled-coil 221 256 NANot foundNot found
Coilcoilcoiled-coil 112 140 NANot foundNot found
Coilcoilcoiled-coil 154 175 NANot foundNot found
ProfileScanPS50192T_SNARE 638 700 14.737IPR000727Target SNARE coiled-coil region
Gene3DG3DSA:1.20.5.110no description 637 702 4.3e-18Not foundNot found
Gene3DG3DSA:1.20.5.110no description 495 573 0.00011Not foundNot found
Gene Ontology
GO TermGO TypeDescription

Note: this gene was not detected its best hit in Swiss-Prot database.

Swiss-Prot
Best HitE_value Description
Q9S7P91e-114SNP33_ARATH SNAP25 homologous protein SNAP33 OS=Arabidopsis thaliana GN=SNAP33 PE=1 SV=1
TrEMBL
Best HitE_value Description
B9DG861e-154B9DG86_ARATH AT5G07890 protein OS=Arabidopsis thaliana GN=AT5G07890 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT5G612101e-114K08509SNAP29synaptosomal-associated protein, 29kDa
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List

Note: the orthologous genes of this gene was not detected by OrthoMCL software with default parameters.

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.oleraceaC09:34943029..37985607 (-)A.thalianaChr5:2455634..4703084 (+)379
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC09:37411309..39260205 (+)B.rapaA10:2316765..3693243 (-)260
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
RAT5G0789025173812519992Chr5Subgenome_III(LF)638
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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