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Becn1 beclin 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 114558, updated on 22-Aug-2021

Summary

Official Symbol
Becn1provided by RGD
Official Full Name
beclin 1provided by RGD
Primary source
RGD:620190
See related
Ensembl:ENSRNOG00000020513
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
Beclin1
Summary
mouse homolog is a haploinsufficient tumor suppressor gene; plays a role in early embryonic development [RGD, Feb 2006]
Expression
Biased expression in Kidney (RPKM 276.8), Thymus (RPKM 266.7) and 9 other tissues See more
Orthologs
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Genomic context

See Becn1 in Genome Data Viewer
Location:
10q31
Exon count:
12
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (86231387..86246742, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (89209944..89225297, complement)

Chromosome 10 - NC_051345.1Genomic Context describing neighboring genes Neighboring gene up-regulated during skeletal muscle growth protein 5 Neighboring gene WNK lysine deficient protein kinase 4 Neighboring gene cytochrome C oxidase assembly factor 3 Neighboring gene cyclin N-terminal domain containing 1 Neighboring gene proteasome activator subunit 3 Neighboring gene amine oxidase, copper containing 2, pseudogene 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables GTPase binding ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables phosphatidylinositol 3-kinase binding ISO
Inferred from Sequence Orthology
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase binding ISO
Inferred from Sequence Orthology
more info
 
enables ubiquitin protein ligase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables ubiquitin protein ligase binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in aging IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within amyloid-beta metabolic process ISO
Inferred from Sequence Orthology
more info
 
involved_in apoptotic process IEA
Inferred from Electronic Annotation
more info
 
involved_in autophagosome assembly IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in autophagosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in autophagosome assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in autophagosome assembly ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in autophagy IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 autophagy ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in autophagy of mitochondrion ISO
Inferred from Sequence Orthology
more info
 
involved_in cell division IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to aluminum ion IEP
Inferred from Expression Pattern
more info
PubMed 
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 epidermal growth factor stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to glucose starvation ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to glucose starvation ISS
Inferred from Sequence or Structural Similarity
more info
 
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
PubMed 
involved_in defense response to virus IEA
Inferred from Electronic Annotation
more info
 
involved_in early endosome to late endosome transport ISO
Inferred from Sequence Orthology
more info
 
involved_in early endosome to late endosome transport ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in engulfment of apoptotic cell ISO
Inferred from Sequence Orthology
more info
 
involved_in late endosome to vacuole transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within lysosome organization ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within macroautophagy ISO
Inferred from Sequence Orthology
more info
 
involved_in macroautophagy ISO
Inferred from Sequence Orthology
more info
 
involved_in macroautophagy ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in mitophagy ISO
Inferred from Sequence Orthology
more info
 
involved_in mitotic metaphase plate congression ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of autophagosome assembly ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of autophagy ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cell death IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of cell death ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of lysosome organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of reactive oxygen species metabolic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within neuron development ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of attachment of mitotic spindle microtubules to kinetochore ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of autophagosome assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of autophagy IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of cardiac muscle hypertrophy ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of intrinsic apoptotic signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of intrinsic apoptotic signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of intrinsic apoptotic signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in receptor catabolic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within regulation of catalytic activity ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cytokinesis ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cytokinesis ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in response to hypoxia IEP
Inferred from Expression Pattern
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 mitochondrial depolarisation ISO
Inferred from Sequence Orthology
more info
 
involved_in response to nutrient levels IEP
Inferred from Expression Pattern
more info
PubMed 
acts_upstream_of_or_within response to other organism ISO
Inferred from Sequence Orthology
more info
 
involved_in response to vitamin E IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in response to xenobiotic stimulus IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
located_in autophagosome ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasmic vesicle ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol IEA
Inferred from Electronic Annotation
more info
 
located_in dendrite IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
 
located_in endosome ISO
Inferred from Sequence Orthology
more info
 
located_in endosome membrane IEA
Inferred from Electronic Annotation
more info
 
located_in extrinsic component of membrane ISO
Inferred from Sequence Orthology
more info
 
located_in mitochondrial membrane IEA
Inferred from Electronic Annotation
more info
 
colocalizes_with mitochondrion ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
located_in phagocytic vesicle ISO
Inferred from Sequence Orthology
more info
 
is_active_in phagophore assembly site IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of phosphatidylinositol 3-kinase complex, class III ISO
Inferred from Sequence Orthology
more info
 
part_of phosphatidylinositol 3-kinase complex, class III ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of phosphatidylinositol 3-kinase complex, class III, type I IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of phosphatidylinositol 3-kinase complex, class III, type II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 
colocalizes_with trans-Golgi network IDA
Inferred from Direct Assay
more info
PubMed 
located_in trans-Golgi network ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
beclin-1
Names
beclin 1 (coiled-coil, myosin-like BCL2-interacting protein)
beclin 1, autophagy related
coiled-coil myosin-like BCL2-interacting protein

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)

  1. NM_001034117.1NP_001029289.1  beclin-1

    See identical proteins and their annotated locations for NP_001029289.1

    Status: VALIDATED

    Source sequence(s)
    BC074011, CK600131
    UniProtKB/Swiss-Prot
    Q91XJ1
    Related
    ENSRNOP00000027868.4, ENSRNOT00000027868.7
    Conserved Domains (3) summary
    pfam04111
    Location:133444
    APG6; Autophagy protein Apg6
    pfam12777
    Location:194267
    MT; Microtubule-binding stalk of dynein motor
    pfam15285
    Location:105127
    BH3; Beclin-1 BH3 domain, Bcl-2-interacting
  2. NM_053739.2NP_446191.1  beclin-1

    See identical proteins and their annotated locations for NP_446191.1

    Status: VALIDATED

    Source sequence(s)
    AY033824, BC074011, CB788828, CK600131
    UniProtKB/Swiss-Prot
    Q91XJ1
    Related
    ENSRNOP00000071966.1, ENSRNOT00000082010.1
    Conserved Domains (3) summary
    pfam04111
    Location:133444
    APG6; Autophagy protein Apg6
    pfam12777
    Location:194267
    MT; Microtubule-binding stalk of dynein motor
    pfam15285
    Location:105127
    BH3; Beclin-1 BH3 domain, Bcl-2-interacting

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051345.1 Reference mRatBN7.2 Primary Assembly

    Range
    86231387..86246742 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039085038.1XP_038940966.1  beclin-1 isoform X1

    Conserved Domains (3) summary
    pfam15285
    Location:105127
    BH3; Beclin-1 BH3 domain, Bcl-2-interacting
    pfam04111
    Location:227394
    APG6; Autophagy protein Apg6
    pfam17675
    Location:133239
    APG6_N; Apg6 coiled-coil region
  2. XM_017596950.2XP_017452439.1  beclin-1 isoform X2

    Conserved Domains (3) summary
    pfam15285
    Location:2042
    BH3; Beclin-1 BH3 domain, Bcl-2-interacting
    pfam04111
    Location:180358
    APG6; Autophagy protein Apg6
    pfam17675
    Location:48174
    APG6_N; Apg6 coiled-coil region
  3. XM_039085039.1XP_038940967.1  beclin-1 isoform X2

    Conserved Domains (3) summary
    pfam15285
    Location:2042
    BH3; Beclin-1 BH3 domain, Bcl-2-interacting
    pfam04111
    Location:180358
    APG6; Autophagy protein Apg6
    pfam17675
    Location:48174
    APG6_N; Apg6 coiled-coil region
  4. XM_039085040.1XP_038940968.1  beclin-1 isoform X3

    Conserved Domains (1) summary
    pfam04111
    Location:69247
    APG6; Autophagy protein Apg6
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