Map1lc3b microtubule-associated protein 1 light chain 3 beta [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Map1lc3bprovided by RGD
Official Full Name: microtubule-associated protein 1 light chain 3 betaprovided by RGD
Primary source: RGD:621315
See related: EnsemblRapid:ENSRNOG00000017905 AllianceGenome:RGD:621315
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: LC3B; Mpl3; zbs559; Map1lc3
Summary: Enables microtubule binding activity and protein domain specific binding activity. Involved in positive regulation of protein binding activity. Located in several cellular components, including autophagosome membrane; dendrite; and neuronal cell body. Part of microtubule associated complex. Orthologous to several human genes including MAP1LC3B (microtubule associated protein 1 light chain 3 beta). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 556.0), Kidney (RPKM 504.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 19q12

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	19	NC_086037.1 (66571631..66582270)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	19	NC_051354.1 (49665795..49673655)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	19	NC_005118.4 (53635449..53643970)

Chromosome 19 - NC_086037.1 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?

Exosomal MALAT1 from macrophages treated with high levels of glucose upregulates LC3B expression via miR-204-5p downregulation.
Title: Exosomal MALAT1 from macrophages treated with high levels of glucose upregulates LC3B expression via miR-204-5p downregulation.
A thermosensitive, reactive oxygen species-responsive, MR409-encapsulated hydrogel ameliorates disc degeneration in rats by inhibiting the secretory autophagy pathway.
Title: A thermosensitive, reactive oxygen species-responsive, MR409-encapsulated hydrogel ameliorates disc degeneration in rats by inhibiting the secretory autophagy pathway.
Mitochondrial ALDH2 inhibits the proliferation of neonatal rat cardiac fibroblasts induced by high glucose, and the effect is possibly mediated by the up-regulation of autophagy-related proteins Beclin-1 and LC3B.
Title: [Effects of mitochondrial aldehyde dehydrogenase 2 on autophagy-associated proteins in neonatal rat myocardial fibroblasts cultured in high glucose].
CHOP and LC3BII may have joint involvement in the occurrence and development of Bronchopulmonary dysplasia.
Title: Increased expression of CHOP and LC3B in newborn rats with bronchopulmonary dysplasia.
Quantifying autophagy using novel LC3B and p62 TR-FRET assays.
Title: Quantifying autophagy using novel LC3B and p62 TR-FRET assays.
a novel role of activated LC3B induced by hyperoxia in AECII transdifferentiation
Title: Hyperoxia-mediated LC3B activation contributes to the impaired transdifferentiation of type II alveolar epithelial cells (AECIIs) to type I cells (AECIs).
microtubule-associated protein 1 light chain 3 binds to cardiolipin. Preventing this interaction inhibits rotenone-induced mitochondrial delivery to autophagosomes
Title: LC3 binds externalized cardiolipin on injured mitochondria to signal mitophagy in neurons: implications for Parkinson disease.
Lipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3.
Title: Lipidation of the LC3/GABARAP family of autophagy proteins relies on a membrane-curvature-sensing domain in Atg3.
Data show that caldendrin specifically associates with the microtubule cytoskeleton via an interaction with the microtubule componentlight chain 3 (Mpl3).
Title: Caldendrin but not calmodulin binds to light chain 3 of MAP1A/B: an association with the microtubule cytoskeleton highlighting exclusive binding partners for neuronal Ca(2+)-sensor proteins.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH128740 (e-PCR)
- UniSTS:212048

Map1lc3b (e-PCR), detects polymorphism
- UniSTS:536421

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ceramide binding	ISO Inferred from Sequence Orthology more info
enables microtubule binding	IBA Inferred from Biological aspect of Ancestor more info
enables microtubule binding	IDA Inferred from Direct Assay more info	PubMed
enables phosphatidylethanolamine binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphatidylethanolamine binding	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	IPI Inferred from Physical Interaction more info	PubMed
enables tubulin binding	IDA Inferred from Direct Assay 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 autophagosome assembly	IBA Inferred from Biological aspect of Ancestor 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 autophagosome maturation	ISO Inferred from Sequence Orthology more info
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in autophagy	ISO Inferred from Sequence Orthology more info
involved_in autophagy of mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to nitrogen starvation	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to starvation	ISO Inferred from Sequence Orthology more info
involved_in cellular response to starvation	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of establishment of localization in cell	ISO Inferred from Sequence Orthology more info
involved_in macroautophagy	ISO Inferred from Sequence Orthology more info
involved_in mitophagy	ISO Inferred from Sequence Orthology more info
involved_in mitophagy	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of mucus secretion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of mucus secretion	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in autolysosome	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 autophagosome membrane	IDA Inferred from Direct Assay more info	PubMed
located_in autophagosome membrane	ISO Inferred from Sequence Orthology more info
located_in axon	IDA Inferred from Direct Assay more info	PubMed
located_in axoneme	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in endomembrane system	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in membrane	ISO Inferred from Sequence Orthology more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
part_of microtubule associated complex	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial membrane	IEA Inferred from Electronic Annotation more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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

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

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_022867.2 → NP_074058.2 microtubule-associated proteins 1A/1B light chain 3B

See identical proteins and their annotated locations for NP_074058.2

Status: PROVISIONAL

Source sequence(s)

AY392036

UniProtKB/TrEMBL

A0A0G2K9Q7, A6IZP8

Related

ENSRNOP00000112440.1, ENSRNOT00000130178.1

Conserved Domains (1) summary

cd17235
Location:5 → 119

Ubl_ATG8_MAP1LC3B; ubiquitin-like (Ubl) domain found in microtubule associate protein 1 light chain 3B (MAP1LC3B)

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_086037.1 Reference GRCr8

Range

66571631..66582270

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017601351.2 → XP_017456840.1 microtubule-associated proteins 1A/1B light chain 3B isoform X2

UniProtKB/Swiss-Prot

Q62625, Q6XVN7

UniProtKB/TrEMBL

A0A0G2K9Q7, A6IZP7

Conserved Domains (1) summary

cd01611
Location:7 → 120

GABARAP; Ubiquitin domain of GABA-receptor-associated protein
XM_063278272.1 → XP_063134342.1 microtubule-associated proteins 1A/1B light chain 3B isoform X1

Related

ENSRNOP00000100980.1, ENSRNOT00000133432.1