Basic Information
Gene Model:Bol009834
Gene Family:Not classified
Chromosome:C08
Scaffold:Scaffold000229
Sequence:
 | 
Gene Structure
Nucleotide Length:1112 bp
Transcript Length:702 bp
Protein Length:233 aa
Strand:+
Location:C08: 37258933 : 37260044
Gene CDSs(5): 1-218 | 303-508 | 609-709 | 792-836 | 981-1112 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
ProfileScanPS50192T_SNARE 137 199 14.274IPR000727Target SNARE coiled-coil region
Gene3DG3DSA:1.20.5.110no description 137 201 9.6e-11Not foundNot found
Segsegseg 205 218 NANot foundNot found
HMMPantherPTHR12380:SF7SYNTAXIN 51 4 228 4.2e-170Not foundNot found
HMMPantherPTHR12380SYNTAXIN 4 228 4.2e-170Not foundNot found
PatternScanPS00914SYNTAXIN 143 182 NAIPR006012Syntaxin/epimorphin, conserved site
HMMPfamPF05739SNARE 142 204 1.3e-14IPR000727Target SNARE coiled-coil region
HMMSmartSM00397no description 132 199 1.6e-07IPR000727Target SNARE coiled-coil region
Gene Ontology
GO TermGO TypeDescription
GO:0005484 Molecular Function SNAP receptor activity
GO:0006886 Biological Process intracellular protein transport
GO:0016020 Cellular Component membrane
Swiss-Prot
Best HitE_value Description
Q9SA231e-119SYP51_ARATH Syntaxin-51 OS=Arabidopsis thaliana GN=SYP51 PE=1 SV=1
TrEMBL
Best HitE_value Description
B9DHH71e-118B9DHH7_ARATH AT1G16240 protein OS=Arabidopsis thaliana GN=AT1G16240 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT1G162401e-118K08503SYP5syntaxin of plants SYP5
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL1667(16 genes,8 taxa):Arabidopsis thalianaAT1G16240.1
ORTHOMCL1667(16 genes,8 taxa):Arabidopsis thalianaAT1G79590.1
ORTHOMCL1667(16 genes,8 taxa):Brassica oleraceaBol009834
ORTHOMCL1667(16 genes,8 taxa):Brassica oleraceaBol038203
ORTHOMCL1667(16 genes,8 taxa):Brassica oleraceaBol038548
ORTHOMCL1667(16 genes,8 taxa):Brassica rapaBra008425
ORTHOMCL1667(16 genes,8 taxa):Brassica rapaBra026074
ORTHOMCL1667(16 genes,8 taxa):Brassica rapaBra026727
ORTHOMCL1667(16 genes,8 taxa):Vitis viniferaGSVIVT01037735001
ORTHOMCL1667(16 genes,8 taxa):Oryza sativaOs08t0277900-01
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0006s03120.1
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0016s02990.1
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0016s02990.2
ORTHOMCL1667(16 genes,8 taxa):Populus trichocarpaPOPTR_0016s03000.1
ORTHOMCL1667(16 genes,8 taxa):Sorghum bicolorSb06g030000.2
ORTHOMCL1667(16 genes,8 taxa):Carica papayaevm.TU.supercontig_12.247
Tandem Arrays
ClusterGene Num.Gene List

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

Syntenic Analysis
Orthologous Genes
Compared to A.thaliana Compared to B.rapa
Syntenic Regions
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC08:36203949..39772111 (-)A.thalianaChr1:3009941..6730931 (+)399
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC08:36906720..38791057 (+)B.rapaA09:2431805..3966665 (+)225
Trplicated Genes
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
AAT1G1624055550075556841Chr1Subgenome_I580
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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