Basic Information
Gene Model:Bol010399
Gene Family:Not classificated
Chromosome:C05
Scaffold:Scaffold000222
Sequence:
 | 
Gene Structure
Nucleotide Length:1106 bp
Transcript Length:657 bp
Protein Length:218 aa
Strand:-
Location:C05: 3960434 : 3961539
Gene CDSs(5): 1-188 | 345-505 | 605-751 | 842-918 | 1023-1106 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
Gene3DG3DSA:1.20.5.110no description 131 193 4.2e-06Not foundNot found
Gene3DG3DSA:3.30.450.50no description 1 127 6.1e-42IPR010908Longin
HMMPfamPF00957Synaptobrevin 132 218 6.5e-26IPR001388Synaptobrevin
superfamilySSF64356SNARE-like 1 128 7.6e-39IPR011012Longin-like
ProfileScanPS50892V_SNARE 135 195 14.232IPR001388Synaptobrevin
ProfileScanPS50859LONGIN 6 120 30.793IPR010908Longin
HMMPantherPTHR21136SNARE PROTEINS 8 213 3.9e-102Not foundNot found
HMMPantherPTHR21136:SF4SNARE PROTEIN SEC22 8 213 3.9e-102Not foundNot found
Gene Ontology
GO TermGO TypeDescription
GO:0006810 Biological Process transport
GO:0016021 Cellular Component integral to membrane
GO:0016192 Biological Process vesicle-mediated transport
Swiss-Prot
Best HitE_value Description
Q94AU21e-125SEC22_ARATH 25.3 kDa vesicle transport protein OS=Arabidopsis thaliana GN=SEC22 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9GXQ01e-120B9GXQ0_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_830706 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
ath:AT1G118901e-125K08517SEC22vesicle transport protein SEC22
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL2794(13 genes,8 taxa):Arabidopsis thalianaAT1G11890.1
ORTHOMCL2794(13 genes,8 taxa):Brassica oleraceaBol002329
ORTHOMCL2794(13 genes,8 taxa):Brassica oleraceaBol010399
ORTHOMCL2794(13 genes,8 taxa):Brassica oleraceaBol031332
ORTHOMCL2794(13 genes,8 taxa):Brassica rapaBra031788
ORTHOMCL2794(13 genes,8 taxa):Vitis viniferaGSVIVT01016709001
ORTHOMCL2794(13 genes,8 taxa):Oryza sativaOs03t0791500-01
ORTHOMCL2794(13 genes,8 taxa):Populus trichocarpaPOPTR_0001s16590.1
ORTHOMCL2794(13 genes,8 taxa):Populus trichocarpaPOPTR_0003s06750.1
ORTHOMCL2794(13 genes,8 taxa):Populus trichocarpaPOPTR_0003s06750.2
ORTHOMCL2794(13 genes,8 taxa):Populus trichocarpaPOPTR_0003s06750.3
ORTHOMCL2794(13 genes,8 taxa):Sorghum bicolorSb01g005550.1
ORTHOMCL2794(13 genes,8 taxa):Carica papayaevm.TU.supercontig_25.154
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

Note: this gene was not anchored on syntenic regions compared to A.thaliana genome.

SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC05:3354166..4241533 (+)B.rapaA06:3742347..4245057 (-)68
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
AAT1G1189040107794013125Chr1Subgenome_III(LF)492
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


logo