Atg12 autophagy related 12 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Atg12provided by RGD
Official Full Name: autophagy related 12provided by RGD
Primary source: RGD:1306306
See related: Ensembl:ENSRNOG00000000157 AllianceGenome:RGD:1306306
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Apg12l
Summary: Involved in autophagy. Located in membrane. Part of protein-containing complex. Orthologous to human ATG12 (autophagy related 12). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 216.0), Brain (RPKM 202.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18q11

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (41638841..41649311, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (39452247..39462424, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (40721799..40732143, complement)

Chromosome 18 - NC_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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
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?

Long-term androgen excess induces insulin resistance and non-alcoholic fatty liver disease in PCOS-like rats.
Title: Long-term androgen excess induces insulin resistance and non-alcoholic fatty liver disease in PCOS-like rats.
Scanning Electron-Assisted Dielectric Microscopy Reveals Autophagosome Formation by LC3 and ATG12 in Cultured Mammalian Cells.
Title: Scanning Electron-Assisted Dielectric Microscopy Reveals Autophagosome Formation by LC3 and ATG12 in Cultured Mammalian Cells.
Study demonstrated that miR-23b expression was significantly downregulated following traumatic brain injury (TBI). In model TBI, overexpression of miR-23b reduced the lesion volume, brain edema and neuronal apoptosis, and improves cognitive dysfunction. miR-23b specifically bound with the 3' UTR of ATG12 mRNA and modulated its translation; suppressed neuronal autophagy by directly targeting ATG12 expression.
Title: miR-23b improves cognitive impairments in traumatic brain injury by targeting ATG12-mediated neuronal autophagy.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH129009 (e-PCR)
- UniSTS:212317

RH138037 (e-PCR)
- UniSTS:220124

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
contributes_to Atg8-family ligase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in autophagosome assembly	IEA Inferred from Electronic Annotation more info
involved_in autophagosome assembly	ISO Inferred from Sequence Orthology more info
involved_in autophagosome maturation	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in autophagy of mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
involved_in glycophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in innate immune response	IEA Inferred from Electronic Annotation more info
involved_in macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of defense response to virus	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of innate immune response	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of type I interferon 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 positive regulation of viral translation	ISO Inferred from Sequence Orthology more info
involved_in protein lipidation involved in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of autophagosome maturation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of Atg12-Atg5-Atg16 complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Atg12-Atg5-Atg16 complex	ISO Inferred from Sequence Orthology more info
located_in autophagosome	ISO Inferred from Sequence Orthology more info
is_active_in autophagosome membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in phagophore assembly site membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in phagophore assembly site membrane	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed
part_of transferase complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ubiquitin-like protein ATG12

Names: ATG12 autophagy related 12 homolog; autophagy 12-like; autophagy-related protein 12

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_001038495.1 → NP_001033584.1 ubiquitin-like protein ATG12

See identical proteins and their annotated locations for NP_001033584.1

Status: PROVISIONAL

Source sequence(s)

BC110056

UniProtKB/Swiss-Prot

Q2TBJ5, Q5M9F9

UniProtKB/TrEMBL

A6IWW9

Related

ENSRNOP00000000170.4, ENSRNOT00000000170.6

Conserved Domains (1) summary

cd01612
Location:55 → 140

Ubl_ATG12; ubiquitin-like (Ubl) domain found in autophagy-related protein 12 (ATG12)

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_086036.1 Reference GRCr8

Range

41638841..41649311 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039096964.2 → XP_038952892.1 ubiquitin-like protein ATG12 isoform X2

Conserved Domains (1) summary

cd01612
Location:22 → 106

Ubl_ATG12; ubiquitin-like (Ubl) domain found in autophagy-related protein 12 (ATG12)
XM_039096963.2 → XP_038952891.1 ubiquitin-like protein ATG12 isoform X1

UniProtKB/TrEMBL

A0A8I5ZYH3

Related

ENSRNOP00000084125.1

Conserved Domains (1) summary

cd01612
Location:47 → 131

Ubl_ATG12; ubiquitin-like (Ubl) domain found in autophagy-related protein 12 (ATG12)
XM_063277470.1 → XP_063133540.1 ubiquitin-like protein ATG12 isoform X3