Map1lc3a microtubule-associated protein 1 light chain 3 alpha [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Map1lc3aprovided by RGD
Official Full Name: microtubule-associated protein 1 light chain 3 alphaprovided by RGD
Primary source: RGD:735183
See related: Ensembl:ENSRNOG00000025443 AllianceGenome:RGD:735183
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: LC3A; LC3-I; LC3-II
Summary: Predicted to enable microtubule binding activity; phosphatidylethanolamine binding activity; and ubiquitin protein ligase binding activity. Involved in several processes, including cellular response to amino acid starvation; cellular response to copper ion; and response to morphine. Located in autophagosome membrane; cytosol; and late endosome. Is active in synapse. Biomarker of several diseases, including artery disease (multiple); degenerative disc disease; ischemia (multiple); retinal detachment; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in glioblastoma. Orthologous to human MAP1LC3A (microtubule associated protein 1 light chain 3 alpha). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 1812.1), Lung (RPKM 574.6) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q41

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (164243204..164244850)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (143783024..143784670)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (150801289..150802935)

Chromosome 3 - NC_086021.1 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
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?

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.
The aryl hydrocarbon receptor reduces LC3II expression and controls endoplasmic reticulum stress.
Title: The aryl hydrocarbon receptor reduces LC3II expression and controls endoplasmic reticulum stress.
Our data presents evidence that AEG-1, LC3-II, Beclin-1, and HIF-1alpha are significantly up-regulated in T-NHL tissues, and hypoxia triggers AEG-1, LC3-II and Beclin-1 expression in T-NHL cells.
Title: AEG-1 is involved in hypoxia-induced autophagy and decreases chemosensitivity in T-cell lymphoma.
We found that both bafilomycin and chloroquine could significantly increase the autophagosome marker LC3-II and inhibit key parameters of mitochondrial function, and increase mtDNA damage.
Title: Inhibition of autophagy with bafilomycin and chloroquine decreases mitochondrial quality and bioenergetic function in primary neurons.
treatment with an autophagy inhibitor decreased LC3II expression.However, miR-30b overexpression decreased Pi-induced expression of autophagy-related marker genes such as BECN1, ATG5, and LC3b, whereas miR-30b downregulation increased Pi-induced expression of these genes. In addition, we found that miR-30b
Title: MicroRNA-30b Regulates High Phosphorus Level-Induced Autophagy in Vascular Smooth Muscle Cells by Targeting BECN1.
autophagy of cytoplasmic bulk cargo was completely LC3 independent.
Title: Autophagy of cytoplasmic bulk cargo does not require LC3.
LC3B modulates Angiotensin II-induced cardiomyocyte hypertrophy in cultured ventricular cardiomyocytes.
Title: LC3B, a Protein That Serves as an Autophagic Marker, Modulates Angiotensin II-induced Myocardial Hypertrophy.
Our findings indicate that increased autophagy in the cerebellum of dogs naturally infected with CDV may play a role in transferring the virus from cell to cell.
Title: Immunohistochemical detection of autophagy-related microtubule-associated protein 1 light chain 3 (LC3) in the cerebellums of dogs naturally infected with canine distemper virus.
Atg1/pULK and LC3 are key in the regulation of autophagy following cerebral ischemia reperfusion in the rat brain.
Title: Activation of autophagy in rat brain cells following focal cerebral ischemia reperfusion through enhanced expression of Atg1/pULK and LC3.
the addition of amino acids to the starvation condition, a similar quick signal appeared by significant reduction of the LC3 ratio and bulk proteolysis.
Title: A quick signal of starvation induced autophagy: transcription versus post-translational modification of LC3.

Submit: New GeneRIF Correction See all GeneRIFs (17)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables microtubule binding	IBA Inferred from Biological aspect of Ancestor more info
enables molecular_function	ND No biological Data available more info
enables phosphatidylethanolamine binding	IBA Inferred from Biological aspect of Ancestor more info
enables phospholipid binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin protein ligase binding	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in JNK cascade	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in SMAD protein signal transduction	IDA Inferred from Direct Assay more info	PubMed
involved_in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagosome assembly	IDA Inferred from Direct Assay more info	PubMed
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 autophagosome maturation	ISO Inferred from Sequence Orthology more info
involved_in autophagy	IDA Inferred from Direct Assay more info	PubMed
involved_in autophagy of mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to amino acid starvation	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to copper ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to hydrogen peroxide	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to nitrogen starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to oxygen-glucose deprivation	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to starvation	ISO Inferred from Sequence Orthology more info
involved_in macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in p38MAPK cascade	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to iron(II) ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to lead ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in autolysosome	ISO Inferred from Sequence Orthology more info
located_in autophagosome	IDA Inferred from Direct Assay more info	PubMed
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 autophagosome membrane	IDA Inferred from Direct Assay more info	PubMed
located_in autophagosome membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
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 microtubule	IEA Inferred from Electronic Annotation more info
located_in organelle membrane	IDA Inferred from Direct Assay more info	PubMed
located_in organelle membrane	ISO Inferred from Sequence Orthology more info
is_active_in synapse	EXP Inferred from Experiment more info	PubMed
is_active_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: microtubule-associated proteins 1A/1B light chain 3A

Names: MAP1 light chain 3-like protein 1; MAP1A/1B light chain 3 A; MAP1A/MAP1B LC3 A; MAP1A/MAP1B light chain 3 A; autophagy-related protein LC3 A; autophagy-related ubiquitin-like modifier LC3 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_199500.2 → NP_955794.1 microtubule-associated proteins 1A/1B light chain 3A

See identical proteins and their annotated locations for NP_955794.1

Status: VALIDATED

Source sequence(s)

FM036735, FM046244, FM053631, FM063664

UniProtKB/Swiss-Prot

Q6XVN8

UniProtKB/TrEMBL

A6KI24, A6KI25

Related

ENSRNOP00000032429.3, ENSRNOT00000035060.5

Conserved Domains (1) summary

cd17234
Location:4 → 120

Ubl_ATG8_MAP1LC3A; ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3A (MAP1LC3A)