Ambra1 autophagy and beclin 1 regulator 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ambra1provided by RGD
Official Full Name: autophagy and beclin 1 regulator 1provided by RGD
Primary source: RGD:621330
See related: EnsemblRapid:ENSRNOG00000017422 AllianceGenome:RGD:621330
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: Nyw1
Summary: Predicted to enable GTPase binding activity and ubiquitin protein ligase binding activity. Involved in cellular response to starvation; negative regulation of cardiac muscle cell apoptotic process; and positive regulation of autophagy. Predicted to be located in axoneme; cytosol; and phagocytic vesicle. Predicted to be active in intracellular membrane-bounded organelle. Predicted to colocalize with mitochondrion. Orthologous to human AMBRA1 (autophagy and beclin 1 regulator 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 77.9), Thymus (RPKM 71.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q24

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (98156626..98345876)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (77700936..77890221)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (80634470..80830068)

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 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?

Ambra1 Alleviates Hypoxia/Reoxygenation Injury in H9C2 Cells by Regulating Autophagy and Reactive Oxygen Species.
Title: Ambra1 Alleviates Hypoxia/Reoxygenation Injury in H9C2 Cells by Regulating Autophagy and Reactive Oxygen Species.
Ambra1 is a crucial regulator of autophagy and apoptosis through AMPK signaling pathway in cardiomyocytes that maintains the balance between autophagy and apoptosis.
Title: Ambra1 modulates starvation-induced autophagy through AMPK signaling pathway in cardiomyocytes.

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

WI-14603 (e-PCR)
- UniSTS:44820

UniSTS:225336 (e-PCR)
- UniSTS:225336

AI176253 (e-PCR)
- UniSTS:250168

A001T07 (e-PCR)
- UniSTS:7301

BF397482 (e-PCR)
- UniSTS:246186

AI176683 (e-PCR)
- UniSTS:250299

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTPase binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein phosphatase binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin protein ligase binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin-like ligase-substrate adaptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-like ligase-substrate adaptor activity	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
acts_upstream_of_or_within autophagy	ISO Inferred from Sequence Orthology more info
involved_in cellular response to starvation	IEP Inferred from Expression Pattern more info	PubMed
involved_in mitophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in mitophagy	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cardiac muscle cell apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neural tube development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of free ubiquitin chain polymerization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of mitophagy	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of regulatory T cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein polyubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of G1/S transition of mitotic cell cycle	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in response to mitochondrial depolarisation	ISO Inferred from Sequence Orthology more info
involved_in response to nutrient levels	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
part_of Cul4-RING E3 ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of Cul4-RING E3 ubiquitin ligase complex	ISO Inferred from Sequence Orthology more info
located_in axoneme	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in intracellular membrane-bounded organelle	IBA Inferred from Biological aspect of Ancestor more info
is_active_in mitochondrion	ISO Inferred from Sequence Orthology more info
located_in mitochondrion	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	ISO Inferred from Sequence Orthology more info
located_in phagocytic vesicle	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: activating molecule in BECN1-regulated autophagy protein 1

Names: autophagy/beclin 1 regulator 1; ischemia related factor NYW-1

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_001134341.4 → NP_001127813.3 activating molecule in BECN1-regulated autophagy protein 1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A6HNE5, F1LNQ2

Related

ENSRNOP00000039742.6, ENSRNOT00000045644.7

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

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_086021.1 Reference GRCr8

Range

98156626..98345876

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_008762030.4 → XP_008760252.2 activating molecule in BECN1-regulated autophagy protein 1 isoform X1

UniProtKB/TrEMBL

A6HNE5, F1LNQ2

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_063284451.1 → XP_063140521.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X5

UniProtKB/TrEMBL

A0A0G2K5B6
XM_008762032.4 → XP_008760254.2 activating molecule in BECN1-regulated autophagy protein 1 isoform X3

UniProtKB/TrEMBL

A0A8I6AGV8

Related

ENSRNOP00000087603.1, ENSRNOT00000093866.2

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_008762031.4 → XP_008760253.2 activating molecule in BECN1-regulated autophagy protein 1 isoform X2

Related

ENSRNOP00000091295.2, ENSRNOT00000105609.2

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039105763.2 → XP_038961691.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X4

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_008762033.4 → XP_008760255.2 activating molecule in BECN1-regulated autophagy protein 1 isoform X5

UniProtKB/TrEMBL

A0A0G2K5B6

Related

ENSRNOP00000073365.2, ENSRNOT00000085614.3

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_063284453.1 → XP_063140523.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X7
XM_008762034.4 → XP_008760256.2 activating molecule in BECN1-regulated autophagy protein 1 isoform X6

UniProtKB/TrEMBL

A0A8I6AF66

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_039105764.2 → XP_038961692.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X8

Conserved Domains (2) summary

sd00039
Location:56 → 92

7WD40; WD40 repeat [structural motif]

cl29593
Location:59 → 198

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
XM_063284454.1 → XP_063140524.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X7
XM_063284450.1 → XP_063140520.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X1

UniProtKB/TrEMBL

A6HNE5, F1LNQ2
XM_063284452.1 → XP_063140522.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X5

UniProtKB/TrEMBL

A0A0G2K5B6
XM_039105765.2 → XP_038961693.1 activating molecule in BECN1-regulated autophagy protein 1 isoform X9

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

NM_021683.1: Suppressed sequence

Description

NM_021683.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.