Atg9a autophagy related 9A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atg9aprovided by RGD
Official Full Name: autophagy related 9Aprovided by RGD
Primary source: RGD:1310450
See related: EnsemblRapid:ENSRNOG00000018975 AllianceGenome:RGD:1310450
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1310450
Summary: Predicted to enable phospholipid scramblase activity. Involved in response to nutrient levels. Located in late endosome. Is active in synaptic vesicle. Orthologous to human ATG9A (autophagy related 9A). [provided by Alliance of Genome Resources, Oct 2024]
Expression: Biased expression in Muscle (RPKM 162.0), Heart (RPKM 129.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q33

Exon count:: 17

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (84126071..84136723, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (76677403..76688050, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (82382800..82393429, complement)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

This study indicates that miR-34a plays a role in regulation of Ang II-induced cardiomyocyte hypertrophy by inhibition of ATG9A expression and autophagic activity.
Title: miR-34a modulates angiotensin II-induced myocardial hypertrophy by direct inhibition of ATG9A expression and autophagic activity.
C. elegans mir-34 mutation extends lifespan by enhancing autophagic flux in C. elegans, and that miR-34 represses autophagy by directly inhibiting the expression of the autophagy-related proteins Atg9 in mammalian cells.
Title: MiR-34 modulates Caenorhabditis elegans lifespan via repressing the autophagy gene atg9.

Submit: New GeneRIF Correction

General gene information

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Markers

BQ193984 (e-PCR)
- UniSTS:261868

D9Mco65 (e-PCR)
- UniSTS:518642

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables phospholipid scramblase activity	IEA Inferred from Electronic Annotation more info
enables phospholipid scramblase activity	ISO Inferred from Sequence Orthology more info
enables phospholipid scramblase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in autophagosome assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in autophagosome assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within autophagy	ISO Inferred from Sequence Orthology more info
involved_in autophagy	ISO Inferred from Sequence Orthology more info
involved_in bone morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in bone morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within innate immune response	ISO Inferred from Sequence Orthology more info
involved_in mitophagy	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of interferon-beta production	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of macrophage cytokine production	ISO Inferred from Sequence Orthology more info
involved_in piecemeal microautophagy of the nucleus	IBA Inferred from Biological aspect of Ancestor more info
involved_in plasma membrane phospholipid scrambling	IEA Inferred from Electronic Annotation more info
involved_in programmed necrotic cell death	ISO Inferred from Sequence Orthology more info
involved_in programmed necrotic cell death	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein localization to Golgi apparatus	ISO Inferred from Sequence Orthology more info
involved_in protein localization to phagophore assembly site	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed
involved_in reticulophagy	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISS Inferred from Sequence or Structural Similarity more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
located_in Golgi membrane	ISO Inferred from Sequence Orthology more info
located_in Golgi membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in autophagosome	IBA Inferred from Biological aspect of Ancestor more info
located_in autophagosome	ISO Inferred from Sequence Orthology more info
located_in autophagosome membrane	IEA Inferred from Electronic Annotation more info
NOT located_in autophagosome membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in endosome	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in late endosome	IDA Inferred from Direct Assay more info	PubMed
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrial membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISS Inferred from Sequence or Structural Similarity more info
is_active_in phagophore assembly site	IBA Inferred from Biological aspect of Ancestor more info
located_in phagophore assembly site	ISO Inferred from Sequence Orthology more info
located_in phagophore assembly site membrane	IEA Inferred from Electronic Annotation more info
located_in recycling endosome	ISO Inferred from Sequence Orthology more info
located_in recycling endosome membrane	IEA Inferred from Electronic Annotation more info
located_in recycling endosome membrane	ISO Inferred from Sequence Orthology more info
located_in recycling endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
is_active_in synaptic membrane	ISO Inferred from Sequence Orthology more info
is_active_in synaptic vesicle	EXP Inferred from Experiment more info	PubMed
is_active_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in trans-Golgi network	IEA Inferred from Electronic Annotation more info
located_in trans-Golgi network	ISO Inferred from Sequence Orthology more info
located_in trans-Golgi network	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: autophagy-related protein 9A

Names: APG9-like 1; ATG9 autophagy related 9 homolog A

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001014218.2 → NP_001014240.1 autophagy-related protein 9A

See identical proteins and their annotated locations for NP_001014240.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/Swiss-Prot

Q5FWU3

UniProtKB/TrEMBL

A0A8I6A9Q8

Conserved Domains (1) summary

pfam04109
Location:37 → 525

APG9; Autophagy protein Apg9
NM_001393880.1 → NP_001380809.1 autophagy-related protein 9A

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/Swiss-Prot

Q5FWU3

UniProtKB/TrEMBL

A0A8I6A9Q8

Related

ENSRNOP00000104252.1, ENSRNOT00000172309.1

Conserved Domains (1) summary

pfam04109
Location:37 → 525

APG9; Autophagy protein Apg9
NM_001393881.1 → NP_001380810.1 autophagy-related protein 9A

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/Swiss-Prot

Q5FWU3

UniProtKB/TrEMBL

A0A8I6A9Q8

Conserved Domains (1) summary

pfam04109
Location:37 → 525

APG9; Autophagy protein Apg9

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086027.1 Reference GRCr8

Range

84126071..84136723 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063267400.1 → XP_063123470.1 autophagy-related protein 9A isoform X1
XM_063267399.1 → XP_063123469.1 autophagy-related protein 9A isoform X1

Related

ENSRNOP00000105428.1, ENSRNOT00000151583.1
XM_063267406.1 → XP_063123476.1 autophagy-related protein 9A isoform X2

UniProtKB/Swiss-Prot

Q5FWU3
XM_063267405.1 → XP_063123475.1 autophagy-related protein 9A isoform X2

UniProtKB/Swiss-Prot

Q5FWU3
XM_063267409.1 → XP_063123479.1 autophagy-related protein 9A isoform X2

UniProtKB/Swiss-Prot

Q5FWU3
XM_063267404.1 → XP_063123474.1 autophagy-related protein 9A isoform X1
XM_063267403.1 → XP_063123473.1 autophagy-related protein 9A isoform X1
XM_063267401.1 → XP_063123471.1 autophagy-related protein 9A isoform X1
XM_063267402.1 → XP_063123472.1 autophagy-related protein 9A isoform X1
XM_063267398.1 → XP_063123468.1 autophagy-related protein 9A isoform X1
XM_063267407.1 → XP_063123477.1 autophagy-related protein 9A isoform X2

UniProtKB/Swiss-Prot

Q5FWU3

Related

ENSRNOP00000025740.6, ENSRNOT00000025740.7
XM_063267410.1 → XP_063123480.1 autophagy-related protein 9A isoform X3