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
Analyze
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); protein-macromolecule adaptor activity (inferred); INVOLVED IN endosome organization (ortholog); symbiont entry into host cell (ortholog); ASSOCIATED WITH Bloom syndrome (ortholog); colorectal cancer (ortholog); genetic disease (ortholog); FOUND IN glutamatergic synapse (ortholog); presynapse (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: 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 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0308,156,484 - 8,165,382 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl308,155,767 - 8,165,381 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1308,079,695 - 8,088,582 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0308,186,066 - 8,194,955 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0308,317,470 - 8,326,365 (+)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


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 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0308,156,484 - 8,165,382 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl308,155,767 - 8,165,381 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1308,079,695 - 8,088,582 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0308,186,066 - 8,194,955 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0308,317,470 - 8,326,365 (+)NCBIUU_Cfam_GSD_1.0
VPS18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381540,894,450 - 40,903,975 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1540,894,450 - 40,903,975 (+)EnsemblGRCh38hg38GRCh38
GRCh371541,186,648 - 41,196,173 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361538,973,920 - 38,983,465 (+)NCBINCBI36Build 36hg18NCBI36
Build 341538,973,919 - 38,983,464NCBI
Celera1517,954,509 - 17,964,054 (+)NCBICelera
Cytogenetic Map15q15.1NCBI
HuRef1518,034,841 - 18,044,386 (+)NCBIHuRef
CHM1_11541,304,520 - 41,314,065 (+)NCBICHM1_1
T2T-CHM13v2.01538,700,456 - 38,709,981 (+)NCBIT2T-CHM13v2.0
Vps18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392119,119,220 - 119,128,934 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2119,119,221 - 119,128,934 (+)EnsemblGRCm39 Ensembl
GRCm382119,288,742 - 119,298,453 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2119,288,740 - 119,298,453 (+)EnsemblGRCm38mm10GRCm38
MGSCv372119,114,478 - 119,124,189 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362118,980,198 - 118,989,894 (+)NCBIMGSCv36mm8
Celera2120,439,068 - 120,448,849 (+)NCBICelera
Cytogenetic Map2E5NCBI
cM Map259.97NCBI
Vps18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83126,733,276 - 126,744,130 (+)NCBIGRCr8
mRatBN7.23106,279,444 - 106,290,298 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3106,279,425 - 106,291,964 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3109,952,396 - 109,963,258 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03118,547,936 - 118,558,798 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03116,208,320 - 116,219,182 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03111,097,352 - 111,108,206 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3111,097,326 - 111,108,295 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03117,648,071 - 117,658,925 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43105,805,381 - 105,816,235 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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
NHGRI_mPanPan1-v21630,136,278 - 30,146,386 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11534,287,583 - 34,297,688 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01519,836,707 - 19,846,231 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11538,086,518 - 38,095,835 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1538,086,518 - 38,095,835 (+)Ensemblpanpan1.1panPan2
Vps18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864086,441,394 - 86,450,716 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364714,289,415 - 4,298,852 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364714,289,487 - 4,297,634 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1130,409,123 - 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 - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12642,091,348 - 42,100,264 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2642,088,938 - 42,100,243 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604898,884,426 - 98,894,032 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vps18
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248048,148,180 - 8,157,552 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248048,148,920 - 8,157,552 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in VPS18
63 total Variants

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


RefSeq Acc Id: ENSCAFT00000014930   ⟹   ENSCAFP00000013817
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl308,027,765 - 8,036,153 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000074826   ⟹   ENSCAFP00000063677
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl308,027,765 - 8,035,468 (+)Ensembl
RefSeq Acc Id: ENSCAFT00000078269   ⟹   ENSCAFP00000054950
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl308,027,128 - 8,036,153 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845051463   ⟹   ENSCAFP00845040377
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl308,155,767 - 8,165,381 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845051495   ⟹   ENSCAFP00845040407
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl308,156,489 - 8,165,379 (+)Ensembl
RefSeq Acc Id: ENSCAFT00845051516   ⟹   ENSCAFP00845040422
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl308,156,489 - 8,164,076 (+)Ensembl
RefSeq Acc Id: XM_022412692   ⟹   XP_022268400
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
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0308,156,484 - 8,165,382 (+)NCBI
RefSeq Acc Id: XM_038442007   ⟹   XP_038297935
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0308,157,113 - 8,165,382 (+)NCBI
RefSeq Acc Id: XM_038516496   ⟹   XP_038372424
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1308,079,695 - 8,088,582 (+)NCBI
RefSeq Acc Id: XM_038580087   ⟹   XP_038436015
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
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
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0308,186,066 - 8,194,955 (+)NCBI
RefSeq Acc Id: XM_038644370   ⟹   XP_038500298
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0308,186,695 - 8,194,955 (+)NCBI
RefSeq Acc Id: XM_544627   ⟹   XP_544627
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:
RefSeq Acc Id: XP_544627   ⟸   XM_544627
- Peptide Label: isoform X1
- UniProtKB: A0A8C0JW33 (UniProtKB/TrEMBL),   A0A8C0P7C4 (UniProtKB/TrEMBL),   A0A8I3Q5H4 (UniProtKB/TrEMBL),   A0A8C0TZ71 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_022268400   ⟸   XM_022412692
- Peptide Label: isoform X2
- UniProtKB: A0A8C0TZ71 (UniProtKB/TrEMBL)
- 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
- UniProtKB: A0A8C0JW33 (UniProtKB/TrEMBL),   A0A8C0P7C4 (UniProtKB/TrEMBL),   A0A8I3Q5H4 (UniProtKB/TrEMBL),   A0A8C0TZ71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038297935   ⟸   XM_038442007
- Peptide Label: isoform X2
- UniProtKB: A0A8C0TZ71 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038436015   ⟸   XM_038580087
- Peptide Label: isoform X1
- UniProtKB: A0A8C0JW33 (UniProtKB/TrEMBL),   A0A8C0P7C4 (UniProtKB/TrEMBL),   A0A8C0TZ71 (UniProtKB/TrEMBL),   A0A8I3Q5H4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038436016   ⟸   XM_038580088
- Peptide Label: isoform X2
- UniProtKB: A0A8C0TZ71 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845040422   ⟸   ENSCAFT00845051516
RefSeq Acc Id: ENSCAFP00845040377   ⟸   ENSCAFT00845051463
RefSeq Acc Id: ENSCAFP00845040407   ⟸   ENSCAFT00845051495

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000009383 Ensembl, UniProtKB/TrEMBL
  ENSCAFG00030023325 UniProtKB/TrEMBL
  ENSCAFG00040025721 UniProtKB/TrEMBL
  ENSCAFG00845029092 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000014930.5 UniProtKB/TrEMBL
  ENSCAFT00000074826.2 UniProtKB/TrEMBL
  ENSCAFT00000078269.2 UniProtKB/TrEMBL
  ENSCAFT00030042880.1 UniProtKB/TrEMBL
  ENSCAFT00030042920.1 UniProtKB/TrEMBL
  ENSCAFT00040048012.1 UniProtKB/TrEMBL
  ENSCAFT00040048014.1 UniProtKB/TrEMBL
  ENSCAFT00845051463 ENTREZGENE
  ENSCAFT00845051463.1 UniProtKB/TrEMBL
  ENSCAFT00845051495 ENTREZGENE
  ENSCAFT00845051495.1 UniProtKB/TrEMBL
  ENSCAFT00845051516.1 UniProtKB/TrEMBL
InterPro Clathrin_H-chain/VPS_repeat UniProtKB/TrEMBL
  Pep3_Vps18 UniProtKB/TrEMBL
NCBI Gene VPS18 ENTREZGENE
PANTHER VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 18 HOMOLOG UniProtKB/TrEMBL
Pfam Pep3_Vps18 UniProtKB/TrEMBL
PROSITE CHCR UniProtKB/TrEMBL
UniProt A0A8C0JW33 ENTREZGENE
  A0A8C0P7C4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C0TXX5_CANLF UniProtKB/TrEMBL
  A0A8C0TZ71 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3Q0J1_CANLF UniProtKB/TrEMBL
  A0A8I3Q5H4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3SC28_CANLF UniProtKB/TrEMBL
  A0A8P0P4C9_CANLF 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