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Atg9a Gene Detail
Summary
  • Symbol
    Atg9a
  • Name
    autophagy related 9A
  • Synonyms
    Apg9l1
  • Feature Type
    protein coding gene
  • IDs
    MGI:2138446
    NCBI Gene: 245860
  • Alliance
    genome feature page
  • Transcription Start Sites
    5 TSS
Location &
Maps
more
  • Sequence Map
    Chr1:75157509-75168654 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 1, 38.62 cM
  • Mapping Data
    1 experiment
Strain
Comparison
more
  • SNPs within 2kb
    305 from dbSNP Build 142
  • Strain Annotations
    19
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_2138446
 protein coding gene Chr1:75157504-75168840 (-)
129S1/SvImJ ENSMUSG00200033028
 protein coding gene Chr1:72817568-72827142 (-)
A/J ENSMUSG00195008752
 protein coding gene Chr1:72242381-72251956 (-)
AKR/J ENSMUSG00220009889
 protein coding gene Chr1:72387674-72397248 (-)
BALB/cJ ENSMUSG00180017908
 protein coding gene Chr1:72504298-72513872 (-)
C3H/HeJ ENSMUSG00175015983
 protein coding gene Chr1:72642758-72652332 (-)
C57BL/6NJ ENSMUSG00215019214
 protein coding gene Chr1:72549651-72559226 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0014287
 protein coding gene Chr1:68663596-68675074 (-)
CAST/EiJ ENSTCUG00005025597
 protein coding gene Chr1:72266713-72276259 (-)
CBA/J ENSMUSG00210035914
 protein coding gene Chr1:72326236-72335810 (-)
DBA/2J ENSMUSG00185030099
 protein coding gene Chr1:73421000-73430574 (-)
FVB/NJ ENSMUSG00205034044
 protein coding gene Chr1:71999224-72008798 (-)
JF1/MsJ ENSUMUG00000001978
 protein coding gene Chr1:72319298-72328887 (-)
LP/J ENSMUSG00230012503
 protein coding gene Chr1:73410674-73420248 (-)
NOD/ShiLtJ ENSMUSG00190027129
 protein coding gene Chr1:72552758-72562331 (-)
NZO/HlLtJ ENSMUSG00225040254
 protein coding gene Chr1:76625794-76635368 (-)
PWK/PhJ ENSLUMG00010011874
 protein coding gene Chr1:71899704-71909300 (-)
SPRET/EiJ ENSMSPG00010016338
 protein coding gene Chr1:73985433-73996727 (-)
WSB/EiJ ENSIUOG00005013290
 protein coding gene Chr1:72173931-72183508 (-)



Homology
more
  • Human Ortholog
    ATG9A, autophagy related 9A
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    ATG9A, autophagy related 9A
  • Synonyms
    APG9L1, mATG9, MGD3208
  • Links
    NCBI Gene ID: 79065
    UniProt: Q7Z3C6

  • Chr Location
    2q35; chr2:219219380-219229717 (-)  GRCh38
Human Diseases
less
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    6 phenotypes from 1 allele in 1 genetic background
    32 phenotype references
Phenotype Overview

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.
Mice homozygous for a null mutation all die within 1 day of birth and display impaired autophagy.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    68
  • GO References
    18
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.
Expression
less
Expression Overview

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
    636
  • Tissues
    12
  • cDNA Data
    43
  • Literature Summary
    7
Sequences &
Gene Models
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Representative SequencesLengthStrain/SpeciesFlank
genomic 245860 NCBI Gene Model | MGI Sequence Detail 11146 C57BL/6J ±  kb
transcript NR_176609 RefSeq | MGI Sequence Detail 4032 C57BL/6  
polypeptide Q68FE2 UniProt | EBI | MGI Sequence Detail 839 Not Applicable  
For the selected sequence
Protein
Information
less
Molecular
Reagents
less
  • All nucleic 46
    Genomic 1
    cDNA 43
    Primer pair 2
    Antibodies 3

    Microarray probesets 3
References
more
  • Summaries
    All 85
    Developmental Gene Expression 7
    Diseases 1
    Gene Ontology 18
    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:386422 Nuzzolillo F, et al., Combined Transcriptomic and Proteomic Profiling Uncovers Developmental Dynamics of Autophagy in the Cortex. Biomedicines. 2026 Apr 2;14(4)
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
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Send questions and comments to User Support. 		last database update
09/08/2026
MGI 6.24 		The Jackson Laboratory