Atg4c MGI Mouse Gene Detail - MGI:2651854 - autophagy related 4C, cysteine peptidase

Symbol

Atg4c
Name

autophagy related 4C, cysteine peptidase
Synonyms

Apg4-C, Apg4c, Autl1, autophagin 3

Feature Type

protein coding gene
IDs

MGI:2651854
NCBI Gene: 242557
Alliance

gene page
Transcription Start Sites

8 TSS

Sequence Map

Chr4:99082171-99148024 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 4, 45.61 cM
Mapping Data

1 experiment

SNPs within 2kb

2218 from dbSNP Build 142
Strain Annotations

18

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_2651854	protein coding gene	Chr4:99077181-99185495 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0028479	protein coding gene	Chr4:99419583-99486819 (+)
A/J	MGP_AJ_G0028442	protein coding gene	Chr4:95965947-96030975 (+)
AKR/J	MGP_AKRJ_G0028389	protein coding gene	Chr4:98289344-98351870 (+)
BALB/cJ	MGP_BALBcJ_G0028460	protein coding gene	Chr4:96219160-96286213 (+)
C3H/HeJ	MGP_C3HHeJ_G0028173	protein coding gene	Chr4:99095583-99160045 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0028899	protein coding gene	Chr4:103183748-103248241 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0026191	protein coding gene	Chr4:91349734-91410644 (+)
CAST/EiJ	MGP_CASTEiJ_G0027613	protein coding gene	Chr4:96875250-96952703 (+)
CBA/J	MGP_CBAJ_G0028142	protein coding gene	Chr4:106360077-106431355 (+)
DBA/2J	MGP_DBA2J_G0028292	protein coding gene	Chr4:95691739-95754257 (+)
FVB/NJ	MGP_FVBNJ_G0028259	protein coding gene	Chr4:94535347-94597354 (+)
LP/J	MGP_LPJ_G0028392	protein coding gene	Chr4:99732287-99799685 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0028287	protein coding gene	Chr4:112088301-112156841 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0028937	protein coding gene	Chr4:98530334-98594232 (+)
PWK/PhJ	MGP_PWKPhJ_G0027338	protein coding gene	Chr4:93838194-93902028 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0027159	protein coding gene	Chr4:95978164-96045482 (+)
WSB/EiJ	MGP_WSBEiJ_G0027691	protein coding gene	Chr4:98672885-98743270 (+)

Human Ortholog

ATG4C, autophagy related 4C cysteine peptidase

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

ATG4C, autophagy related 4C cysteine peptidase
Synonyms

APG4-C, APG4C, AUTL1, AUTL3, HsAPG4C
Links

HGNC:16040

NCBI Gene ID: 84938

neXtProt AC: NX_Q96DT6

UniProt: Q96DT6
Chr Location

1p31.3; chr1:62784132-62865516 (+) GRCh38

MGI Vertebrate Homology

Atg4c stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: ATG4C
Gene Tree

Atg4c

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Phenotype Summary

3 phenotypes from 1 allele in 1 genetic background
16 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

12
Chemically induced (other)

2
Endonuclease-mediated

2
Gene trapped

3
Radiation induced

1
Targeted

4
Genomic Mutations

4 involving Atg4c
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

26 strains or lines available

Mice homozygous for a knock-out allele show a higher incidence of chemically-induced fibrosarcomas, and exhibit both a significant reduction of autophagic activity in the diaphragm muscle as well as decreased locomotor activity after prolonged starvation.

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All GO Annotations

23
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	non-membrane-bounded 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

749
Tissues

30
cDNA Data

8
Literature Summary

2

Images

Tissue x Stage Matrix

Other Mouse Links

Allen Institute

GENSAT

GEO

Expression Atlas
Other Vertebrate Links

Xenbase atg4c

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All Sequences

59
RefSeq

22
UniProt

2
CCDS

CCDS18382.1

Ensembl

ENSMUSG00000028550 (Evidence)
NCBI Gene

242557

			Length	Strain/Species	Flank
genomic	ENSMUSG00000028550	Ensembl Gene Model \| MGI Sequence Detail	65854	C57BL/6J	± kb
transcript	ENSMUST00000030279	Ensembl \| MGI Sequence Detail	3178	Not Applicable
polypeptide	ENSMUSP00000030279	Ensembl \| MGI Sequence Detail	458	Not Applicable

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UniProt

2 Sequences
Protein Ontology

PR:000004416 cysteine protease ATG4C

(term hierarchy)
EC

3.4.22.-
InterPro Domains

IPR046793 Cysteine protease ATG4, F-type LIR motif

IPR038765 Papain-like cysteine peptidase superfamily

IPR005078 Peptidase C54

IPR046792 Peptidase C54, catalytic domain

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All nucleic 8

cDNA 8

Microarray probesets 3

Summaries

All 44

Developmental Gene Expression 2

Gene Ontology 7

Phenotypes 16
Earliest

J:81439 Marino G, et al., Human autophagins, a family of cysteine proteinases potentially implicated in cell degradation by autophagy. J Biol Chem. 2003 Feb 7;278(6):3671-8
Latest

J:341370 Tamargo-Gomez I, et al., Analysis of ATG4C function in vivo. Autophagy. 2023 Nov;19(11):2912-2933

TSS for Atg4c:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr37926	Chr4:99082133-99082172 (+)	-18 bp
Tssr37927	Chr4:99082361-99082441 (+)	230 bp
Tssr37928	Chr4:99082489-99082503 (+)	325 bp
Tssr37929	Chr4:99082508-99082519 (+)	343 bp
Tssr37930	Chr4:99082986-99083019 (+)	832 bp
Tssr37931	Chr4:99112728-99112731 (+)	30,559 bp
Tssr37932	Chr4:99128761-99128784 (+)	46,602 bp
Tssr37933	Chr4:99142080-99142095 (+)	59,917 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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