Vps35 (VPS35 retromer complex component) - Rat Genome Database

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Pathways
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Gene: Vps35 (VPS35 retromer complex component) Heterocephalus glaber
Analyze
Symbol: Vps35
Name: VPS35 retromer complex component
RGD ID: 18926344
Description: ENCODES a protein that exhibits D1 dopamine receptor binding (ortholog); INVOLVED IN endocytic recycling (ortholog); lysosome organization (ortholog); mitochondrial fragmentation involved in apoptotic process (ortholog); PARTICIPATES IN altered retromer-mediated pathway; Parkinson's disease pathway; retromer-mediated pathway; ASSOCIATED WITH genetic disease (ortholog); glycogen storage disease IXB (ortholog); late onset Parkinson's disease (ortholog); FOUND IN cytoplasm (ortholog); dopaminergic synapse (ortholog); early endosome (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: vacuolar protein sorting 35 homolog; vacuolar protein sorting-associated protein 35
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624914160,483 - 188,490 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624914160,483 - 188,534 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
endocytic recycling  (ISO)
intracellular protein transport  (IEA)
lysosome organization  (ISO)
mitochondrial fragmentation involved in apoptotic process  (ISO)
mitochondrion to lysosome vesicle-mediated transport  (ISO)
modulation of chemical synaptic transmission  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of inflammatory response  (ISO)
negative regulation of late endosome to lysosome transport  (ISO)
negative regulation of lysosomal protein catabolic process  (ISO)
negative regulation of protein homooligomerization  (ISO)
negative regulation of protein localization  (ISO)
neurotransmitter receptor transport, endosome to plasma membrane  (ISO)
neurotransmitter receptor transport, endosome to postsynaptic membrane  (ISO)
positive regulation of canonical Wnt signaling pathway  (ISO)
positive regulation of dopamine biosynthetic process  (ISO)
positive regulation of dopamine receptor signaling pathway  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of locomotion involved in locomotory behavior  (ISO)
positive regulation of mitochondrial fission  (ISO)
positive regulation of protein catabolic process  (ISO)
positive regulation of protein localization to cell periphery  (ISO)
positive regulation of Wnt protein secretion  (ISO)
protein destabilization  (ISO)
protein localization to endosome  (ISO)
protein localization to organelle  (ISO)
protein transport  (IEA)
regulation of dendritic spine maintenance  (ISO)
regulation of mitochondrion organization  (ISO)
regulation of postsynapse assembly  (ISO)
regulation of protein metabolic process  (ISO)
regulation of protein stability  (ISO)
regulation of synapse maturation  (ISO)
regulation of terminal button organization  (ISO)
retrograde transport, endosome to Golgi  (IEA)
transcytosis  (ISO)
vesicle-mediated transport in synapse  (ISO)
voluntary musculoskeletal movement  (ISO)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Vps35
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624914160,483 - 188,490 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624914160,483 - 188,534 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
VPS35
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381646,656,132 - 46,689,178 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1646,656,132 - 46,689,518 (-)EnsemblGRCh38hg38GRCh38
GRCh371646,690,044 - 46,723,090 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361645,251,090 - 45,280,645 (-)NCBINCBI36Build 36hg18NCBI36
Build 341645,251,091 - 45,280,593NCBI
Celera1631,201,751 - 31,231,306 (-)NCBICelera
Cytogenetic Map16q11.2NCBI
HuRef1632,582,305 - 32,611,908 (-)NCBIHuRef
CHM1_11648,100,524 - 48,130,101 (-)NCBICHM1_1
T2T-CHM13v2.01652,452,996 - 52,486,052 (-)NCBIT2T-CHM13v2.0
Vps35
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39885,987,014 - 86,026,146 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl885,987,021 - 86,026,431 (-)EnsemblGRCm39 Ensembl
GRCm38885,260,385 - 85,299,517 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl885,260,392 - 85,299,802 (-)EnsemblGRCm38mm10GRCm38
MGSCv37887,784,291 - 87,823,396 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36888,150,497 - 88,189,603 (-)NCBIMGSCv36mm8
Celera889,541,447 - 89,580,450 (-)NCBICelera
Cytogenetic Map8C3NCBI
cM Map841.61NCBI
Vps35
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81937,938,989 - 37,974,887 (+)NCBIGRCr8
mRatBN7.21921,765,771 - 21,801,620 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1921,765,749 - 21,801,618 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1923,455,852 - 23,491,776 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01928,650,370 - 28,686,295 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01931,613,200 - 31,649,098 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01927,464,937 - 27,500,636 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1927,464,937 - 27,500,636 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01938,430,733 - 38,466,263 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41923,124,790 - 23,161,655 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1921,625,446 - 21,661,413 (+)NCBICelera
Cytogenetic Map19q11NCBI
Vps35
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955448204,991 - 240,160 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955448207,582 - 240,264 (-)NCBIChiLan1.0ChiLan1.0
VPS35
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21856,118,897 - 56,148,460 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11662,024,010 - 62,053,586 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01626,924,901 - 26,954,443 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11645,815,716 - 45,846,672 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1645,817,371 - 45,846,531 (-)Ensemblpanpan1.1panPan2
VPS35
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1158,428,073 - 8,454,601 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl158,428,172 - 8,454,049 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha158,581,899 - 8,608,418 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0158,544,407 - 8,570,955 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl158,544,515 - 8,571,199 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1158,373,461 - 8,399,977 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0158,454,130 - 8,480,928 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0158,469,932 - 8,496,696 (+)NCBIUU_Cfam_GSD_1.0
Vps35
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934959,511,247 - 59,538,597 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647550,321 - 78,097 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647550,476 - 77,797 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS35
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl637,944,127 - 37,986,171 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1637,944,099 - 37,977,091 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
VPS35
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1532,509,037 - 32,539,371 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl532,508,580 - 32,539,343 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604744,064,261 - 44,095,348 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000002520   ⟹   ENSHGLP00000002469
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_004624914160,483 - 188,490 (-)Ensembl
RefSeq Acc Id: ENSHGLT00000002521   ⟹   ENSHGLP00000002470
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_004624914161,255 - 183,890 (-)Ensembl
RefSeq Acc Id: XM_004873884   ⟹   XP_004873941
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_004624914160,483 - 188,534 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004873941 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000002469
  ENSHGLP00100008021
GenBank Protein JAO01008 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_004873941   ⟸   XM_004873884
- UniProtKB: A0A0P6K669 (UniProtKB/TrEMBL),   G5C3N6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSHGLP00000002470   ⟸   ENSHGLT00000002521
RefSeq Acc Id: ENSHGLP00000002469   ⟸   ENSHGLT00000002520


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000001863 Ensembl, ENTREZGENE
  ENSHGLG00100005968 UniProtKB/TrEMBL
Ensembl Transcript ENSHGLT00000002520 ENTREZGENE
  ENSHGLT00100008119 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.660 UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/TrEMBL
  Vps35 UniProtKB/TrEMBL
  Vps35_C UniProtKB/TrEMBL
KEGG Report hgl:101697141 UniProtKB/TrEMBL
NCBI Gene Vps35 ENTREZGENE
PANTHER PTHR11099 UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 35 UniProtKB/TrEMBL
Pfam Vps35 UniProtKB/TrEMBL
PIRSF Retromer_Vps35 UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/TrEMBL
UniProt A0A0P6K669 ENTREZGENE, UniProtKB/TrEMBL
  G5C3N6 ENTREZGENE, UniProtKB/TrEMBL