Basic Information
Gene Model:Bol032154
Gene Family:Not classificated
Chromosome:C09
Scaffold:Scaffold000049
Sequence:
 | 
Gene Structure
Nucleotide Length:1519 bp
Transcript Length:918 bp
Protein Length:305 aa
Strand:+
Location:C09: 1553362 : 1554880
Gene CDSs(2): 1-488 | 1090-1519 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Coilcoilcoiled-coil 46 67 NANot foundNot found
ProfileScanPS50192T_SNARE 206 268 18.581IPR000727Target SNARE coiled-coil region
Gene3DG3DSA:1.20.1050.30no description 33 240 1.9e-51Not foundNot found
PatternScanPS00914SYNTAXIN 212 251 NAIPR006012Syntaxin/epimorphin, conserved site
Segsegseg 281 294 NANot foundNot found
HMMSmartSM00397no description 201 268 1.3e-17IPR000727Target SNARE coiled-coil region
HMMSmartSM00503no description 31 157 5.8e-40IPR006011Syntaxin, N-terminal
HMMPantherPTHR19957SYNTAXIN 35 236 3e-114Not foundNot found
HMMPantherPTHR19957:SF26SYNTAXIN, ARABIDOPSI 35 236 3e-114Not foundNot found
HMMPfamPF05739SNARE 211 273 5.2e-20IPR000727Target SNARE coiled-coil region
HMMPfamPF00804Syntaxin 35 142 2.6e-29IPR006011Syntaxin, N-terminal
superfamilySSF47661t-snare proteins 33 241 2e-49IPR010989t-SNARE
Gene Ontology
GO TermGO TypeDescription
GO:0005484 Molecular Function SNAP receptor activity
GO:0005515 Molecular Function protein binding
GO:0006886 Biological Process intracellular protein transport
GO:0016020 Cellular Component membrane
GO:0016192 Biological Process vesicle-mediated transport
Swiss-Prot
Best HitE_value Description
Q9ZQZ81e-162SY123_ARATH Syntaxin-123 OS=Arabidopsis thaliana GN=SYP123 PE=2 SV=1
TrEMBL
Best HitE_value Description
Q0WPM41e-160Q0WPM4_ARATH At4g03330 OS=Arabidopsis thaliana GN=At4g03330 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT4G033301e-161K08486STX1B_2_3syntaxin 1B/2/3
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL18760(3 genes,3 taxa):Arabidopsis thalianaAT4G03330.1
ORTHOMCL18760(3 genes,3 taxa):Brassica oleraceaBol032154
ORTHOMCL18760(3 genes,3 taxa):Brassica rapaBra034202
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.oleraceaC09:500941..1722070 (+)A.thalianaChr4:570242..1610037 (+)122
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC09:1003484..1584799 (+)B.rapaA05:16324838..16922968 (-)26
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
OAT4G0333014663361467750Chr4Subgenome_III(LF)188
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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