Atg4b MGI Mouse Gene Detail - MGI:1913865 - autophagy related 4B, cysteine peptidase

Symbol

Atg4b
Name

autophagy related 4B, cysteine peptidase
Synonyms

2510009N07Rik, Apg4b, autophagin 1

Feature Type

protein coding gene
IDs

MGI:1913865
NCBI Gene: 66615
Alliance

genome feature page
Transcription Start Sites

5 TSS

Sequence Map

Chr1:93682627-93717328 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 1, 47.32 cM
Mapping Data

2 experiments

SNPs within 2kb

772 from dbSNP Build 142
Strain Annotations

19

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_1913865	protein coding gene	Chr1:93679222-93718332 (+)
129S1/SvImJ	ENSMUSG00200036098	protein coding gene	Chr1:90895942-90935174 (+)
A/J	ENSMUSG00195026536	protein coding gene	Chr1:90454912-90494104 (+)
AKR/J	ENSMUSG00220044618	protein coding gene	Chr1:90610204-90649340 (+)
BALB/cJ	ENSMUSG00180013992	protein coding gene	Chr1:90772106-90811318 (+)
C3H/HeJ	ENSMUSG00175001183	protein coding gene	Chr1:90649760-90688978 (+)
C57BL/6NJ	ENSMUSG00215031306	protein coding gene	Chr1:90581758-90620879 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0014462	protein coding gene	Chr1:86220036-86262159 (+)
CAST/EiJ	ENSTCUG00005006804	protein coding gene	Chr1:90231116-90270002 (+)
CBA/J	ENSMUSG00210011822	protein coding gene	Chr1:90494946-90534145 (+)
DBA/2J	ENSMUSG00185013858	protein coding gene	Chr1:94968196-95007436 (+)
FVB/NJ	ENSMUSG00205033305	protein coding gene	Chr1:89904587-89943792 (+)
JF1/MsJ	ENSUMUG00000013990	protein coding gene	Chr1:93707278-93746499 (+)
LP/J	ENSMUSG00230022445	protein coding gene	Chr1:94232029-94271246 (+)
NOD/ShiLtJ	ENSMUSG00190023226	protein coding gene	Chr1:90539795-90579027 (+)
NZO/HlLtJ	ENSMUSG00225003149	protein coding gene	Chr1:98129832-98169046 (+)
PWK/PhJ	ENSLUMG00010041127	protein coding gene	Chr1:90101677-90141086 (+)
SPRET/EiJ	ENSMSPG00010000618	protein coding gene	Chr1:92126738-92166767 (+)
WSB/EiJ	ENSIUOG00005035838	protein coding gene	Chr1:90199567-90238788 (+)

Human Ortholog

ATG4B, autophagy related 4B cysteine peptidase

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

ATG4B, autophagy related 4B cysteine peptidase
Synonyms

APG4B, AUTL1, HsAPG4B
Links

HGNC:20790

NCBI Gene ID: 23192

UniProt: Q9Y4P1
Chr Location

2q37.3; chr2:241637213-241673857 (+) GRCh38

MGI Vertebrate Homology

Atg4b stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: ATG4B
Gene Tree

Atg4b

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Phenotype Summary

32 phenotypes from 3 alleles in 3 genetic backgrounds
2 images
32 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

4
Gene trapped

10
Radiation induced

1
Targeted

5
Transgenic

1
Genomic Mutations

2 involving Atg4b
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

38 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for a gene trap allele exhibit decreased autophagy, impaired swimming, circling, head tilting, and abnormal utricle, saccular, and otolith morphology. Mice homozygous for another gene trap allele exhibit partial preweaning lethality and impaired motor coordination and learning.

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All GO Annotations

49
GO References

12

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

676
Tissues

46
cDNA Data

13
Literature Summary

5

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase atg4b

ZFIN atg4b

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All Sequences

78
RefSeq

11
UniProt

7
CCDS

CCDS15195.1

Ensembl

ENSMUSG00000026280 (Evidence)
NCBI Gene

66615

			Length	Strain/Species	Flank
genomic	66615	NCBI Gene Model \| MGI Sequence Detail	34702	C57BL/6J	± kb
transcript	NM_174874	RefSeq \| MGI Sequence Detail	3169	C57BL/6
polypeptide	Q8BGE6	UniProt \| EBI \| MGI Sequence Detail	393	Not Applicable

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UniProt

7 Sequences
Protein Ontology

PR:000004415 cysteine protease ATG4B

(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
GlyGen

Q8BGE6 2 sites, 1 O-linked glycan (1 site)

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All nucleic 14

cDNA 13

Primer pair 1

Microarray probesets 6

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MGI:2138547

Summaries

All 81

Developmental Gene Expression 5

Gene Ontology 12

Phenotypes 32
Earliest

J:134667 Roderick TH, et al., Two radiation-induced chromosomal inversions in mice (Mus musculus). Proc Natl Acad Sci U S A. 1970 Oct;67(2):961-7
Latest

J:376102 Liu X, et al., Circ-0000953 deficiency exacerbates podocyte injury and autophagy disorder by targeting Mir665-3p-Atg4b in diabetic nephropathy. Autophagy. 2024 May;20(5):1072-1097

TSS for Atg4b:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr8195	Chr1:93682621-93682654 (+)	11 bp
Tssr8196	Chr1:93682655-93682668 (+)	35 bp
Tssr8197	Chr1:93682674-93682751 (+)	86 bp
Tssr8198	Chr1:93682870-93682890 (+)	253 bp
Tssr8199	Chr1:93682896-93682915 (+)	279 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)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 09/08/2026 MGI 6.24