Basic Information
Gene Model:Bol038675
Gene Family:Not classificated
Chromosome:C04
Scaffold:Scaffold000020_P2
Sequence:
 | 
Gene Structure
Nucleotide Length:2067 bp
Transcript Length:816 bp
Protein Length:271 aa
Strand:+
Location:C04: 14209343 : 14211409
Gene CDSs(10): 1-77 | 147-239 | 353-446 | 712-749 | 873-973 | 1328-1407 | 1485-1541 | 1618-1710 | 1790-1864 | 1960-2067 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
ProfileScanPS50192T_SNARE 146 208 9.360IPR000727Target SNARE coiled-coil region
Coilcoilcoiled-coil 38 73 NANot foundNot found
Coilcoilcoiled-coil 78 99 NANot foundNot found
HMMPantherPTHR21230:SF2NOVEL PLANT SNARE 2 242 3.1e-149Not foundNot found
HMMPantherPTHR21230VESICLE TRANSPORT V- 2 242 3.1e-149Not foundNot found
HMMPfamPF05008V-SNARE 156 215 0.00011IPR007705Vesicle transport v-SNARE
HMMSmartSM00397no description 141 208 4.6e-06IPR000727Target SNARE coiled-coil region
Gene3DG3DSA:1.20.5.110no description 146 210 7.4e-06Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0006886 Biological Process intracellular protein transport
GO:0016020 Cellular Component membrane
Swiss-Prot
Best HitE_value Description
Q9LRP11e-139NPS13_ARATH Novel plant SNARE 13 OS=Arabidopsis thaliana GN=NPSN13 PE=1 SV=1
TrEMBL
Best HitE_value Description
Q541Y41e-130Q541Y4_ARATH Putative uncharacterized protein At1g48240/F21D18_3 OS=Arabidopsis thaliana GN=At1g48240/F21D18_3 PE=2 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT1G482401e-131K08494NSPNnovel plant SNARE
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL2535(14 genes,8 taxa):Arabidopsis thalianaAT3G17440.1
ORTHOMCL2535(14 genes,8 taxa):Brassica oleraceaBol009279
ORTHOMCL2535(14 genes,8 taxa):Brassica oleraceaBol022936
ORTHOMCL2535(14 genes,8 taxa):Brassica oleraceaBol038675
ORTHOMCL2535(14 genes,8 taxa):Brassica rapaBra001663
ORTHOMCL2535(14 genes,8 taxa):Brassica rapaBra021248
ORTHOMCL2535(14 genes,8 taxa):Brassica rapaBra022216
ORTHOMCL2535(14 genes,8 taxa):Vitis viniferaGSVIVT01017683001
ORTHOMCL2535(14 genes,8 taxa):Oryza sativaOs03t0369800-01
ORTHOMCL2535(14 genes,8 taxa):Oryza sativaOs07t0637400-01
ORTHOMCL2535(14 genes,8 taxa):Populus trichocarpaPOPTR_0010s00430.1
ORTHOMCL2535(14 genes,8 taxa):Sorghum bicolorSb01g034400.1
ORTHOMCL2535(14 genes,8 taxa):Sorghum bicolorSb02g040620.1
ORTHOMCL2535(14 genes,8 taxa):Carica papayaevm.TU.supercontig_146.29
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.oleraceaC04:13856851..14294392 (-)A.thalianaChr3:5909001..6116458 (+)33
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC04:13856851..14294392 (+)B.rapaA05:4789939..5043057 (-)34
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
FAT3G1744059695655972502Chr3Subgenome_III(LF)52
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


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