VPS18 (VPS18 core subunit of CORVET and HOPS complexes) - Rat Genome Database

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Gene: VPS18 (VPS18 core subunit of CORVET and HOPS complexes) Canis lupus familiaris
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Symbol: VPS18
Name: VPS18 core subunit of CORVET and HOPS complexes
RGD ID: 12244096
Description: ENCODES a protein that exhibits actin binding (inferred); metal ion binding (inferred); syntaxin binding (inferred); INVOLVED IN endosome organization (ortholog); viral entry into host cell (ortholog); ASSOCIATED WITH Bloom syndrome (ortholog); colon cancer (ortholog); FOUND IN presynapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Also known as: LOW QUALITY PROTEIN: vacuolar protein sorting-associated protein 18 homolog; vacuolar protein sorting-associated protein 18 homolog; VPS18, CORVET/HOPS core subunit
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1308,027,877 - 8,036,773 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl308,027,128 - 8,036,153 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha308,082,485 - 8,091,381 (+)NCBI
ROS_Cfam_1.0308,156,484 - 8,165,382 (+)NCBI
UMICH_Zoey_3.1308,079,695 - 8,088,582 (+)NCBI
UNSW_CanFamBas_1.0308,186,066 - 8,194,955 (+)NCBI
UU_Cfam_GSD_1.0308,317,470 - 8,326,365 (+)NCBI
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

Cellular Component

Molecular Function

References

Genomics

Comparative Map Data
VPS18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1308,027,877 - 8,036,773 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl308,027,128 - 8,036,153 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha308,082,485 - 8,091,381 (+)NCBI
ROS_Cfam_1.0308,156,484 - 8,165,382 (+)NCBI
UMICH_Zoey_3.1308,079,695 - 8,088,582 (+)NCBI
UNSW_CanFamBas_1.0308,186,066 - 8,194,955 (+)NCBI
UU_Cfam_GSD_1.0308,317,470 - 8,326,365 (+)NCBI
VPS18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1540,894,450 - 40,903,975 (+)EnsemblGRCh38hg38GRCh38
GRCh381540,894,410 - 40,903,975 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371541,186,648 - 41,196,173 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361538,973,920 - 38,983,465 (+)NCBINCBI36hg18NCBI36
Build 341538,973,919 - 38,983,464NCBI
Celera1517,954,509 - 17,964,054 (+)NCBI
Cytogenetic Map15q15.1NCBI
HuRef1518,034,841 - 18,044,386 (+)NCBIHuRef
CHM1_11541,304,520 - 41,314,065 (+)NCBICHM1_1
Vps18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392119,119,220 - 119,128,934 (+)NCBIGRCm39mm39
GRCm39 Ensembl2119,119,221 - 119,128,934 (+)Ensembl
GRCm382119,288,742 - 119,298,453 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2119,288,740 - 119,298,453 (+)EnsemblGRCm38mm10GRCm38
MGSCv372119,114,478 - 119,124,189 (+)NCBIGRCm37mm9NCBIm37
MGSCv362118,980,198 - 118,989,894 (+)NCBImm8
Celera2120,439,068 - 120,448,849 (+)NCBICelera
Cytogenetic Map2E5NCBI
Vps18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23106,279,444 - 106,290,298 (+)NCBI
Rnor_6.0 Ensembl3111,097,326 - 111,108,295 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03111,097,352 - 111,108,206 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03117,648,071 - 117,658,925 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43105,805,381 - 105,816,235 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13105,702,019 - 105,712,066 (+)NCBI
Celera3105,192,710 - 105,203,564 (+)NCBICelera
Cytogenetic Map3q35NCBI
Vps18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554167,772,653 - 7,782,542 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554167,772,653 - 7,780,408 (+)NCBIChiLan1.0ChiLan1.0
VPS18
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11538,086,518 - 38,095,835 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1538,086,518 - 38,095,835 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01519,836,707 - 19,846,231 (+)NCBIMhudiblu_PPA_v0panPan3
Vps18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864086,441,394 - 86,450,716 (+)NCBI
SpeTri2.0NW_0049364714,289,487 - 4,297,634 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1130,409,122 - 130,420,450 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11130,409,121 - 130,420,467 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21145,570,607 - 145,579,989 (-)NCBISscrofa10.2Sscrofa10.2susScr3
VPS18
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12642,091,348 - 42,100,264 (-)NCBI
ChlSab1.1 Ensembl2642,088,938 - 42,100,243 (-)Ensembl
Vero_WHO_p1.0NW_02366604898,884,426 - 98,894,032 (+)NCBI
Vps18
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248048,148,920 - 8,157,552 (+)NCBI


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system respiratory system adipose tissue
High
Medium 6 1 10 4 1
Low 5 5 16 6 5 6 6 6 2 8 6 5
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000014930   ⟹   ENSCAFP00000013817
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl308,027,765 - 8,036,153 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000074826   ⟹   ENSCAFP00000063677
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl308,027,765 - 8,035,468 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000078269   ⟹   ENSCAFP00000054950
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl308,027,128 - 8,036,153 (+)Ensembl
RefSeq Acc Id: XM_022412692   ⟹   XP_022268400
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1308,028,364 - 8,036,773 (+)NCBI
Dog10K_Boxer_Tasha308,083,115 - 8,091,381 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038442006   ⟹   XP_038297934
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0308,156,484 - 8,165,382 (+)NCBI
RefSeq Acc Id: XM_038442007   ⟹   XP_038297935
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0308,157,113 - 8,165,382 (+)NCBI
RefSeq Acc Id: XM_038516496   ⟹   XP_038372424
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1308,079,695 - 8,088,582 (+)NCBI
RefSeq Acc Id: XM_038580087   ⟹   XP_038436015
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0308,317,470 - 8,326,365 (+)NCBI
RefSeq Acc Id: XM_038580088   ⟹   XP_038436016
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0308,318,099 - 8,326,365 (+)NCBI
RefSeq Acc Id: XM_038644369   ⟹   XP_038500297
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0308,186,066 - 8,194,955 (+)NCBI
RefSeq Acc Id: XM_038644370   ⟹   XP_038500298
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0308,186,695 - 8,194,955 (+)NCBI
RefSeq Acc Id: XM_544627   ⟹   XP_544627
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1308,027,877 - 8,036,773 (+)NCBI
Dog10K_Boxer_Tasha308,082,485 - 8,091,381 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: XP_544627   ⟸   XM_544627
- Peptide Label: isoform X1
- UniProtKB: E2RAT8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022268400   ⟸   XM_022412692
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSCAFP00000054950   ⟸   ENSCAFT00000078269
RefSeq Acc Id: ENSCAFP00000063677   ⟸   ENSCAFT00000074826
RefSeq Acc Id: ENSCAFP00000013817   ⟸   ENSCAFT00000014930
RefSeq Acc Id: XP_038372424   ⟸   XM_038516496
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038500297   ⟸   XM_038644369
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038500298   ⟸   XM_038644370
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038297934   ⟸   XM_038442006
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038297935   ⟸   XM_038442007
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038436015   ⟸   XM_038580087
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038436016   ⟸   XM_038580088
- Peptide Label: isoform X2
Protein Domains
Pep3_Vps18


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000009383 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCAFP00000013817 ENTREZGENE, UniProtKB/TrEMBL
  ENSCAFP00000054950 ENTREZGENE, UniProtKB/TrEMBL
  ENSCAFP00000063677 UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000014930 UniProtKB/TrEMBL
  ENSCAFT00000074826 UniProtKB/TrEMBL
  ENSCAFT00000078269 UniProtKB/TrEMBL
InterPro Clathrin_H-chain/VPS_repeat UniProtKB/TrEMBL
  Pep3_Vps18 UniProtKB/TrEMBL
NCBI Gene VPS18 ENTREZGENE
Pfam Clathrin UniProtKB/TrEMBL
  Pep3_Vps18 UniProtKB/TrEMBL
PROSITE CHCR UniProtKB/TrEMBL
UniProt A0A5F4CQ93_CANLF UniProtKB/TrEMBL
  A0A5F4DAC1_CANLF UniProtKB/TrEMBL
  E2RAT8 ENTREZGENE, UniProtKB/TrEMBL
VGNC ID VGNC:48279 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-01-30 VPS18  VPS18 core subunit of CORVET and HOPS complexes    VPS18, CORVET/HOPS core subunit  Symbol and/or name change 5135510 APPROVED