Vps35 (VPS35 retromer complex component) - Rat Genome Database

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Gene: Vps35 (VPS35 retromer complex component) Mus musculus
Analyze
Symbol: Vps35
Name: VPS35 retromer complex component
RGD ID: 10891
MGI Page MGI
Description: Enables D1 dopamine receptor binding activity. Involved in several processes, including regulation of gene expression; regulation of protein localization; and regulation of synapse organization. Located in several cellular components, including neuronal cell body; perinuclear region of cytoplasm; and postsynaptic density. Part of retromer complex. Is active in several cellular components, including dopaminergic synapse; glutamatergic synapse; and postsynapse. Is expressed in several structures, including alimentary system; brain; genitourinary system; hemolymphoid system gland; and liver and biliary system. Used to study Parkinson's disease and Parkinson's disease 17. Human ortholog(s) of this gene implicated in Parkinson's disease and Parkinson's disease 17. Orthologous to human VPS35 (VPS35 retromer complex component).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AI647796; maternal embryonic message 3; maternal-embryonic 3; Mem3; vacuolar protein sorting 35; vacuolar protein sorting-associated protein 35; vesicle protein sorting 35
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
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
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal axon morphology  (IAGP)
abnormal dopaminergic neuron morphology  (IAGP)
abnormal excitatory postsynaptic potential  (IAGP)
abnormal gait  (IEA)
abnormal lysosome morphology  (IAGP)
abnormal miniature excitatory postsynaptic currents  (IAGP)
abnormal mitochondrial physiology  (IAGP)
abnormal mitochondrial shape  (IAGP)
abnormal nervous system dopamine level  (IAGP)
abnormal retina morphology  (IEA)
abnormal small intestinal crypt cell proliferation  (IAGP)
abnormal spatial learning  (IAGP)
abnormal substantia nigra pars compacta morphology  (IAGP)
alpha-synuclein inclusion body  (IAGP)
amyloid beta deposits  (IAGP)
astrocytosis  (IAGP)
bradykinesia  (IAGP)
decreased cerebral infarct size  (IAGP)
decreased dopamine level  (IAGP)
decreased dopaminergic neuron number  (IAGP)
decreased interleukin-1 beta secretion  (IAGP)
decreased interleukin-6 secretion  (IAGP)
decreased locomotor activity  (IAGP)
decreased mitochondrial size  (IAGP)
decreased neuron apoptosis  (IAGP)
decreased post-tetanic potentiation  (IAGP)
decreased susceptibility to induced morbidity/mortality  (IAGP)
decreased tumor necrosis factor secretion  (IAGP)
decreased vertical activity  (IAGP)
embryonic lethality, complete penetrance  (IAGP)
impaired coordination  (IAGP)
impaired synaptic plasticity  (IAGP)
increased interleukin-10 secretion  (IAGP)
increased interleukin-4 secretion  (IAGP)
increased macrophage cell number  (IAGP)
increased transforming growth factor beta level  (IAGP)
lipofuscinosis  (IAGP)
loss of dopaminergic neurons  (IAGP)
microgliosis  (IAGP)
neurodegeneration  (IAGP)
no abnormal phenotype detected  (IEA)
oxidative stress  (IAGP)
preweaning lethality, complete penetrance  (IEA)
reduced AMPA-mediated synaptic currents  (IAGP)
reduced long-term potentiation  (IAGP)
reduced NMDA-mediated synaptic currents  (IAGP)
slow movement  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Genes associated with Parkinson's disease: regulation of autophagy and beyond. Beilina A and Cookson MR, J Neurochem. 2015 Jul 30. doi: 10.1111/jnc.13266.
2. Retromer and sorting nexins in endosomal sorting. Gallon M and Cullen PJ, Biochem Soc Trans. 2015 Feb;43(1):33-47. doi: 10.1042/BST20140290.
3. Impaired intracellular trafficking defines early Parkinson's disease. Hunn BH, etal., Trends Neurosci. 2015 Mar;38(3):178-88. doi: 10.1016/j.tins.2014.12.009. Epub 2015 Jan 29.
4. MGDs mouse GO annotations MGD data from the GO Consortium
5. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. The endosomal pathway in Parkinson's disease. Perrett RM, etal., Mol Cell Neurosci. 2015 May;66(Pt A):21-8. doi: 10.1016/j.mcn.2015.02.009. Epub 2015 Feb 19.
8. Mouse MP Annotation Import Pipeline RGD automated import pipeline
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Cloning and characterization of human VPS35 and mouse Vps35 and mapping of VPS35 to human chromosome 16q13-q21. Zhang P, etal., Genomics 2000 Dec 1;70(2):253-7.
Additional References at PubMed
PMID:8678978   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:12520002   PMID:15489334   PMID:15782199   PMID:15965486   PMID:16141072  
PMID:16141073   PMID:16190980   PMID:17114649   PMID:17239604   PMID:17696874   PMID:17983586   PMID:18160348   PMID:18480253   PMID:18656452   PMID:20923837   PMID:21040701   PMID:21873635  
PMID:22105352   PMID:22794259   PMID:23055941   PMID:23259059   PMID:23395371   PMID:23416069   PMID:23509071   PMID:23665500   PMID:24130821   PMID:24457600   PMID:24512632   PMID:24819384  
PMID:24849652   PMID:25533483   PMID:25737280   PMID:26203154   PMID:26321632   PMID:26521016   PMID:26965651   PMID:27333042   PMID:27460146   PMID:27717139   PMID:28173004   PMID:28378742  
PMID:28384478   PMID:28934248   PMID:29118110   PMID:29445238   PMID:29743203   PMID:29853629   PMID:29893854   PMID:30068389   PMID:30155515   PMID:30333137   PMID:30457570   PMID:30550785  
PMID:30842285   PMID:31771656   PMID:31907392   PMID:32088968   PMID:32291328   PMID:32325033   PMID:32631998   PMID:32968282   PMID:33135724   PMID:33239387   PMID:33257649   PMID:33261640  
PMID:33660780   PMID:33745227   PMID:34445101   PMID:34530877   PMID:34704029   PMID:34965419   PMID:35045281   PMID:35236374   PMID:35367368   PMID:37142655   PMID:37248224   PMID:37542299  
PMID:38091401   PMID:38355793   PMID:38409392   PMID:38831312   PMID:38862989   PMID:39043666  


Genomics

Comparative Map Data
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
(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
(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
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

Variants

.
Variants in Vps35
1169 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:186
Count of miRNA genes:167
Interacting mature miRNAs:176
Transcripts:ENSMUST00000034131
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined866326836100326976Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83663015493455280Mouse
12904012Cfq10_mconditioned fear QTL 10 (mouse)88079340489740987Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85892810792928107Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined876411976110412125Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined835109930115563747Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined866084397100084549Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85474046188740637Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85515925889159407Mouse
1301767Fcsa2_mfemoral cross-sectional area 2 (mouse)Not determined871032003105032123Mouse
10412234Nhdlq14_mnon-HDL QTL 14 (mouse)Not determined876411976110412125Mouse
1301766Desp1_mdespair 1 (mouse)Not determined885486208119486373Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871740461124622354Mouse
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832506572117965439Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6418673698186736Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86466617698666325Mouse
10755519Wbc1_mwhite blood cell count 1 (mouse)882345783116345783Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837867154110326632Mouse
1301581Char2_mP. chabaudi malaria resistance QTL 2 (mouse)Not determined879808806113809031Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85913640493136404Mouse
1301874Hdlq16_mHDL QTL 16 (mouse)Not determined876411976110412125Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85629887290298872Mouse
1301872Cd4ts3_mCD4 T cell subset 3 (mouse)Not determined872122809106123021Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86151347995513605Mouse
1558780Idd22_minsulin dependent diabetes susceptibility 22 (mouse)Not determined871829531105829637Mouse
1300920Pitm3_mprion incubation time 3 (mouse)Not determined873929123107929226Mouse
4141395Char2a_mP. chabaudi malaria resistance QTL 2a (mouse)Not determined7158942790929226Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)84016229795416226Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85233484386334843Mouse
10755530Wbc2_mwhite blood cell count 2 (mouse)881819296115819296Mouse
4142283Imraq2_mimmune response to AAV2 QTL 2 (mouse)Not determined871032003105032123Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)874126628126826739Mouse
1301099Cbm2_mcerebellum weight 2 (mouse)Not determined879245241113245331Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71740461124622354Mouse
1558890Lith18_mlithogenic gene 18 (mouse)Not determined876402145110402251Mouse

Markers in Region
AI647796  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38885,260,597 - 85,260,730UniSTSGRCm38
MGSCv37887,784,496 - 87,784,629UniSTSGRCm37
Celera889,541,652 - 89,541,785UniSTS
Cytogenetic Map8C3UniSTS
cM Map838.0UniSTS
Whitehead/MRC_RH81013.82UniSTS
Vps35  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8C3UniSTS
cM Map838.0UniSTS
Mem3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38885,260,529 - 85,260,693UniSTSGRCm38
MGSCv37887,784,428 - 87,784,592UniSTSGRCm37
Celera889,541,584 - 89,541,748UniSTS
Cytogenetic Map8C3UniSTS
cM Map838.0UniSTS
Mem3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8C3UniSTS
cM Map838.0UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_022997 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC134854 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC159275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF226323 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK077506 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK135680 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK142382 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK145421 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK145853 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK150682 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK160547 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK162726 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK166821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK167421 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK167594 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK168880 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK170473 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK187614 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK190441 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK194883 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK196710 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK204911 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK208279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK210202 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK210949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK218937 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK219106 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC005469 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC006637 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U47024 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000034131   ⟹   ENSMUSP00000034131
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl885,987,021 - 86,026,431 (-)Ensembl
GRCm38.p6 Ensembl885,260,392 - 85,299,802 (-)Ensembl
Ensembl Acc Id: ENSMUST00000209228
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl886,015,813 - 86,026,098 (-)Ensembl
GRCm38.p6 Ensembl885,289,184 - 85,299,469 (-)Ensembl
Ensembl Acc Id: ENSMUST00000209277
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl885,996,131 - 86,001,132 (-)Ensembl
GRCm38.p6 Ensembl885,269,502 - 85,274,503 (-)Ensembl
Ensembl Acc Id: ENSMUST00000211154
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl886,017,974 - 86,026,092 (-)Ensembl
GRCm38.p6 Ensembl885,291,345 - 85,299,463 (-)Ensembl
Ensembl Acc Id: ENSMUST00000211479
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl886,016,070 - 86,026,095 (-)Ensembl
GRCm38.p6 Ensembl885,289,441 - 85,299,466 (-)Ensembl
RefSeq Acc Id: NM_022997   ⟹   NP_075373
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39885,987,014 - 86,026,146 (-)NCBI
GRCm38885,260,385 - 85,299,517 (-)NCBI
MGSCv37887,784,291 - 87,823,396 (-)RGD
Celera889,541,447 - 89,580,450 (-)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_075373   ⟸   NM_022997
- UniProtKB: Q61123 (UniProtKB/Swiss-Prot),   Q9EQH3 (UniProtKB/Swiss-Prot),   Q3TRJ1 (UniProtKB/TrEMBL),   Q3TJ43 (UniProtKB/TrEMBL),   Q3TKU6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000034131   ⟸   ENSMUST00000034131

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9EQH3-F1-model_v2 AlphaFold Q9EQH3 1-796 view protein structure

Promoters
RGD ID:8667753
Promoter ID:EPDNEW_M11908
Type:initiation region
Name:Vps35_1
Description:Mus musculus VPS35 retromer complex component , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38885,299,517 - 85,299,577EPDNEW
RGD ID:6843886
Promoter ID:MM_KWN:55146
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day1,   3T3L1_Day2,   3T3L1_Day3,   3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:ENSMUST00000034131,   NM_001163791,   NM_019716,   NR_028268
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36887,822,591 - 87,823,892 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1890467 AgrOrtholog
Ensembl Genes ENSMUSG00000031696 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000034131 ENTREZGENE
  ENSMUST00000034131.10 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.660 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vps35 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Vps35_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:65114 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1890467 ENTREZGENE
NCBI Gene 65114 ENTREZGENE
PANTHER PTHR11099 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 35 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Vps35 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Vps35 PhenoGen
PIRSF Retromer_Vps35 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt Q3TJ43 ENTREZGENE, UniProtKB/TrEMBL
  Q3TKU6 ENTREZGENE, UniProtKB/TrEMBL
  Q3TRJ1 ENTREZGENE, UniProtKB/TrEMBL
  Q3TUV7_MOUSE UniProtKB/TrEMBL
  Q3UQJ1_MOUSE UniProtKB/TrEMBL
  Q61123 ENTREZGENE
  Q9EQH3 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q61123 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-21 Vps35  VPS35 retromer complex component    vacuolar protein sorting 35  Symbol and/or name change 5135510 APPROVED