Vps13c MGI Mouse Gene Detail - MGI:2444207 - vacuolar protein sorting 13C

Symbol

Vps13c
Name

vacuolar protein sorting 13C
Synonyms

C230055H22Rik

Feature Type

protein coding gene
IDs

MGI:2444207
NCBI Gene: 320528
Alliance

genome feature page
Transcription Start Sites

15 TSS

Sequence Map

Chr9:67747678-67902920 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 9, 36.77 cM
Mapping Data

2 experiments

SNPs within 2kb

4370 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2444207	protein coding gene	Chr9:67747594-67905026 (+)
129S1/SvImJ	ENSMUSG00200041182	protein coding gene	Chr9:64841934-64997516 (+)
A/J	ENSMUSG00195026278	protein coding gene	Chr9:64582811-64738315 (+)
AKR/J	ENSMUSG00220037401	protein coding gene	Chr9:64720764-64876294 (+)
BALB/cJ	ENSMUSG00180016848	protein coding gene	Chr9:64702316-64857809 (+)
C3H/HeJ	ENSMUSG00175012802	protein coding gene	Chr9:64715939-64871435 (+)
C57BL/6NJ	ENSMUSG00215021839	protein coding gene	Chr9:64690248-64845488 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0032392	protein coding gene	Chr9:65057144-65215121 (+)
CAST/EiJ	ENSTCUG00005028948	protein coding gene	Chr9:64589410-64739538 (+)
CBA/J	ENSMUSG00210014216	protein coding gene	Chr9:64788808-64944628 (+)
DBA/2J	ENSMUSG00185029742	protein coding gene	Chr9:64813839-64969675 (+)
FVB/NJ	ENSMUSG00205021677	protein coding gene	Chr9:65124958-65274915 (+)
JF1/MsJ	ENSUMUG00000011050	protein coding gene	Chr9:64886262-65036598 (+)
LP/J	ENSMUSG00230021285	protein coding gene	Chr9:65040983-65196543 (+)
NOD/ShiLtJ	ENSMUSG00190020022	protein coding gene	Chr9:64913884-65069729 (+)
NZO/HlLtJ	ENSMUSG00225044608	protein coding gene	Chr9:65113413-65269245 (+)
PWK/PhJ	ENSLUMG00010023460	protein coding gene	Chr9:64841882-64991854 (+)
SPRET/EiJ	ENSMSPG00010016863	protein coding gene	Chr9:65916490-66066320 (+)
WSB/EiJ	ENSIUOG00005022465	protein coding gene	Chr9:64295621-64451009 (+)

Human Ortholog

VPS13C, vacuolar protein sorting 13 homolog C

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

VPS13C, vacuolar protein sorting 13 homolog C
Synonyms

BLTP5C, PARK23
Links

HGNC:23594

NCBI Gene ID: 54832

UniProt: Q709C8
Chr Location

15q22.2; chr15:61852389-62060473 (-) GRCh38

MGI Vertebrate Homology

Vps13c stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: VPS13C
Gene Tree

Vps13c

Diseases

1 with human VPS13C associations

				Human Disease	Mouse Models
				Parkinson's disease 23 IDs Parkinson's disease 23 DOID:0060896 ICD10CM:G20 OMIM:616840

Click on a disease name to see all genes associated with that disease.

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Phenotype Summary

16 phenotypes from 2 alleles in 3 genetic backgrounds
17 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

22
Chemically induced (other)

1
Endonuclease-mediated

6
Gene trapped

10
Targeted

5
Genomic Mutations

1 involving Vps13c
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

169 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

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All GO Annotations

40
GO References

7

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

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Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

643
Tissues

23
cDNA Data

10
Literature Summary

7

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase vps13c

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All Sequences

82
RefSeq

12
UniProt

11
CCDS

CCDS40676.1

Ensembl

ENSMUSG00000035284 (Evidence)
NCBI Gene

320528

			Length	Strain/Species	Flank
genomic	ENSMUSG00000035284	Ensembl Gene Model \| MGI Sequence Detail	155243	C57BL/6J	± kb
transcript	ENSMUST00000077879	Ensembl \| MGI Sequence Detail	11527	Not Applicable
polypeptide	ENSMUSP00000077040	Ensembl \| MGI Sequence Detail	3748	Not Applicable

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UniProt

11 Sequences
Protein Ontology

PR:000017321 intermembrane lipid transfer protein VPS13C

(term hierarchy)
InterPro Domains

IPR056748 Intermembrane lipid transfer protein VPS13-like, C-terminal

IPR026847 Vacuolar protein sorting-associated protein 13

IPR026854 Vacuolar protein sorting-associated protein 13, N-terminal domain

IPR009543 Vacuolar protein sorting-associated protein 13, VPS13 adaptor binding domain

IPR056747 VPS13-like, middle region
GlyGen

Q8BX70 3 sites, 2 N-linked glycans (2 sites), 1 O-linked glycan (1 site)

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All nucleic 16

Genomic 2

cDNA 10

Primer pair 4

Microarray probesets 4

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MGI:2143091, MGI:2143255, MGI:2143453

Summaries

All 51

Developmental Gene Expression 7

Gene Ontology 7

Phenotypes 17
Earliest

J:80000 The FANTOM Consortium and The RIKEN Genome Exploration Research Group Phase I & II Team, Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 2002;420:563-573
Latest

J:373104 Xu P, et al., Impaired hematopoiesis and embryonic lethality at midgestation of mice lacking both lipid transfer proteins VPS13A and VPS13C. PLoS Biol. 2025 Sep;23(9):e3003393

TSS for Vps13c:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr85801	Chr9:67747613-67747640 (+)	-51 bp
Tssr85802	Chr9:67747645-67747654 (+)	-28 bp
Tssr85803	Chr9:67747662-67747665 (+)	-14 bp
Tssr85804	Chr9:67747668-67747711 (+)	12 bp
Tssr85805	Chr9:67747729-67747736 (+)	55 bp
Tssr85806	Chr9:67759769-67759787 (+)	12,100 bp
Tssr85807	Chr9:67761588-67761605 (+)	13,919 bp
Tssr85808	Chr9:67766109-67766127 (+)	18,440 bp
Tssr85809	Chr9:67766128-67766147 (+)	18,460 bp
Tssr85810	Chr9:67769571-67769580 (+)	21,898 bp
Tssr85811	Chr9:67787709-67787732 (+)	40,043 bp
Tssr85812	Chr9:67799089-67799096 (+)	51,415 bp
Tssr85813	Chr9:67810883-67810890 (+)	63,209 bp
Tssr85814	Chr9:67842579-67842611 (+)	94,917 bp
Tssr85815	Chr9:67891957-67891960 (+)	144,281 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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