VPS13C (vacuolar protein sorting 13 homolog C) - Rat Genome Database

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Gene: VPS13C (vacuolar protein sorting 13 homolog C) Chlorocebus sabaeus
Analyze
Symbol: VPS13C
Name: vacuolar protein sorting 13 homolog C
RGD ID: 18373454
Description: INVOLVED IN negative regulation of type 2 mitophagy; response to insulin (ortholog); ASSOCIATED WITH Alzheimer's disease (ortholog); Bloom syndrome (ortholog); colorectal cancer (ortholog); FOUND IN mitochondrial outer membrane
Type: protein-coding
RefSeq Status: MODEL
Previously known as: vacuolar protein sorting-associated protein 13C
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12621,463,393 - 21,647,944 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2621,463,657 - 21,648,603 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048119,739,546 - 119,924,207 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
VPS13C
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12621,463,393 - 21,647,944 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2621,463,657 - 21,648,603 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048119,739,546 - 119,924,207 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
VPS13C
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381561,852,389 - 62,060,447 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1561,852,389 - 62,060,473 (-)EnsemblGRCh38hg38GRCh38
GRCh371562,144,588 - 62,352,646 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361559,931,880 - 60,139,939 (-)NCBINCBI36Build 36hg18NCBI36
Build 341559,931,879 - 60,139,939NCBI
Celera1539,034,037 - 39,241,888 (-)NCBICelera
Cytogenetic Map15q22.2NCBI
HuRef1538,966,908 - 39,175,239 (-)NCBIHuRef
CHM1_11562,264,112 - 62,472,186 (-)NCBICHM1_1
T2T-CHM13v2.01559,655,984 - 59,864,419 (-)NCBIT2T-CHM13v2.0
Vps13c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39967,747,594 - 67,905,026 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl967,747,678 - 67,902,920 (+)EnsemblGRCm39 Ensembl
GRCm38967,840,316 - 67,997,744 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl967,840,396 - 67,995,638 (+)EnsemblGRCm38mm10GRCm38
MGSCv37967,688,203 - 67,843,441 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36967,639,567 - 67,796,023 (+)NCBIMGSCv36mm8
MGSCv36968,440,120 - 68,593,896 (+)NCBIMGSCv36mm8
Celera965,070,042 - 65,224,890 (+)NCBICelera
Cytogenetic Map9CNCBI
cM Map936.77NCBI
Vps13c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8877,359,499 - 77,533,009 (+)NCBIGRCr8
mRatBN7.2868,478,366 - 68,651,893 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl868,478,395 - 68,651,895 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0873,682,814 - 73,843,290 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl873,682,887 - 73,842,928 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0878,012,179 - 78,174,887 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4872,196,264 - 72,365,531 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera873,070,323 - 73,229,973 (-)NCBICelera
Cytogenetic Map8q24NCBI
Vps13c
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545013,016,950 - 13,174,990 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545013,016,933 - 13,178,797 (+)NCBIChiLan1.0ChiLan1.0
VPS13C
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21651,117,056 - 51,322,181 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11555,297,087 - 55,498,202 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01540,819,512 - 41,020,644 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11559,116,946 - 59,319,705 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1559,119,001 - 59,319,619 (-)Ensemblpanpan1.1panPan2
VPS13C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13026,600,181 - 26,776,347 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3026,601,513 - 26,776,763 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3026,516,146 - 26,692,465 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03026,777,160 - 26,946,615 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3026,777,169 - 26,946,615 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13026,714,979 - 26,884,285 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03026,773,728 - 26,944,232 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03027,018,883 - 27,188,026 (-)NCBIUU_Cfam_GSD_1.0
Vps13c
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640104,813,396 - 104,994,087 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647122,661,447 - 22,842,150 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647122,661,899 - 22,842,144 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS13C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1109,931,264 - 110,104,241 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11109,931,269 - 110,105,519 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21121,361,178 - 121,530,405 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Vps13c
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478110,259,976 - 10,413,278 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478110,259,971 - 10,414,421 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in VPS13C
3893 total Variants

Expression

RNA-SEQ Expression

ectoderm
endocrine system
hemolymphoid system
mesenchyme
mesoderm
nervous system
reproductive system
76 36 20 36 36 60 20

Sequence


Ensembl Acc Id: ENSCSAT00000010210   ⟹   ENSCSAP00000008302
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl2621,463,657 - 21,648,603 (+)Ensembl
RefSeq Acc Id: XM_008016378   ⟹   XP_008014569
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12621,463,655 - 21,647,944 (+)NCBI
Vero_WHO_p1.0NW_023666048119,739,546 - 119,924,197 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008016380   ⟹   XP_008014571
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12621,463,655 - 21,647,944 (+)NCBI
Vero_WHO_p1.0NW_023666048119,739,546 - 119,924,207 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008016384   ⟹   XP_008014575
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.12621,503,670 - 21,647,944 (+)NCBI
Vero_WHO_p1.0NW_023666048119,739,546 - 119,884,029 (-)NCBI
Sequence:
RefSeq Acc Id: XR_005244342
Type: NON-CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666048119,739,546 - 119,924,178 (-)NCBI
RefSeq Acc Id: XR_005244343
Type: NON-CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666048119,739,546 - 119,924,178 (-)NCBI
Protein Sequences
Protein RefSeqs XP_008014569 (Get FASTA)   NCBI Sequence Viewer  
  XP_008014571 (Get FASTA)   NCBI Sequence Viewer  
  XP_008014575 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCSAP00000008302.1
RefSeq Acc Id: XP_008014569   ⟸   XM_008016378
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RI63 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008014571   ⟸   XM_008016380
- Peptide Label: isoform X2
- UniProtKB: A0A0D9RI63 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_008014575   ⟸   XM_008016384
- Peptide Label: isoform X3
- UniProtKB: A0A0D9RI63 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSCSAP00000008302   ⟸   ENSCSAT00000010210


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000012132 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000010210.1 UniProtKB/TrEMBL
InterPro Autophagy-rel_C UniProtKB/TrEMBL
  SHR-BD UniProtKB/TrEMBL
  VPS13 UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_mid_rpt UniProtKB/TrEMBL
  VPS13_N UniProtKB/TrEMBL
  VPS13_N2 UniProtKB/TrEMBL
KEGG Report csab:103245525 UniProtKB/TrEMBL
NCBI Gene VPS13C ENTREZGENE
PANTHER PTHR16166 UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 13C UniProtKB/TrEMBL
Pfam ATG_C UniProtKB/TrEMBL
  Chorein_N UniProtKB/TrEMBL
  SHR-BD UniProtKB/TrEMBL
  VPS13 UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_C UniProtKB/TrEMBL
  VPS13_mid_rpt UniProtKB/TrEMBL
UniProt A0A0D9RI63 ENTREZGENE, UniProtKB/TrEMBL