Basic Information
Gene Model:Bol044321
Gene Family:Not classificated
Chromosome:C08
Scaffold:Scaffold000002
Sequence:
 | 
Gene Structure
Nucleotide Length:5099 bp
Transcript Length:1656 bp
Protein Length:551 aa
Strand:-
Location:C08: 29136137 : 29141235
Gene CDSs(21): 1-90 | 174-267 | 360-412 | 524-581 | 847-927 | 1463-1533 | 1629-1710 | 2086-2192 | 2302-2364 | 2608-2661 | 2745-2796 | 3072-3166 | 3469-3525 | 3624-3668 | 3789-3896 | 3967-4032 | 4133-4243 | 4354-4548 | 4685-4765 | 4930-4969 | 5047-5099 |
Protein Sequence Features
Interpro
DatabaseTermsIdentifierStartEndE-valueInterPro IDDescription
HMMPantherPTHR11679VESICLE PROTEIN SORT 24 550 2.6e-179IPR001619Sec1-like protein
HMMPantherPTHR11679:SF1VACUOLAR PROTEIN SOR 24 550 2.6e-179Not foundNot found
Gene3DG3DSA:3.90.830.10no description 243 354 4e-09Not foundNot found
superfamilySSF56815Sec1/munc18-like (SM 4 548 3.9e-111IPR001619Sec1-like protein
HMMPfamPF00995Sec1 35 546 1.1e-37IPR001619Sec1-like protein
Gene Ontology
GO TermGO TypeDescription
GO:0006904 Biological Process vesicle docking during exocytosis
GO:0016192 Biological Process vesicle-mediated transport
Swiss-Prot
Best HitE_value Description
Q94KJ70.0VPS33_ARATH Vacuolar protein sorting-associated protein 33 homolog OS=Arabidopsis thaliana GN=VPS33 PE=2 SV=1
TrEMBL
Best HitE_value Description
B9HUI90.0B9HUI9_POPTR Predicted protein OS=Populus trichocarpa GN=POPTRDRAFT_1092514 PE=4 SV=1
KEGG
Best HitE_valueKOEC or Symbol Description
fgr:FG06876.11e-75K11450AOF2, LSD1lysine-specific histone demethylase 1
Gene Cluster
Orthologs
OrthoMCL GroupSpeciesGene List
ORTHOMCL8036(9 genes,8 taxa):Arabidopsis thalianaAT3G54860.2
ORTHOMCL8036(9 genes,8 taxa):Brassica oleraceaBol044321
ORTHOMCL8036(9 genes,8 taxa):Brassica rapaBra007106
ORTHOMCL8036(9 genes,8 taxa):Vitis viniferaGSVIVT01016224001
ORTHOMCL8036(9 genes,8 taxa):Oryza sativaOs04t0223000-01
ORTHOMCL8036(9 genes,8 taxa):Populus trichocarpaPOPTR_0008s03550.1
ORTHOMCL8036(9 genes,8 taxa):Populus trichocarpaPOPTR_0010s23340.1
ORTHOMCL8036(9 genes,8 taxa):Sorghum bicolorSb03g025460.1
ORTHOMCL8036(9 genes,8 taxa):Carica papayaevm.TU.supercontig_1603.2
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.oleraceaC08:29129169..31352420 (+)A.thalianaChr3:20318412..21566482 (+)209
SpeciesRegionMapped SpeciesMapped RegionNum. of Genewise
B.oleraceaC08:27373536..34472409 (+)B.rapaA09:10065156..15472209 (+)727
Trplicated Block
BlockBest HitStartENDChromosomeSubgenomeNum. of Gene Pairs on Block
NAT3G548602032409020329917Chr3Subgenome_III(LF)368
 
@2012 Department of Genomics and Molecular Biology, Oil Crops Research Institute.


logo