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Becn1 beclin 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 114558, updated on 11-Nov-2018

Summary

Official Symbol
Becn1provided by RGD
Official Full Name
beclin 1provided by RGD
Primary source
RGD:620190
See related
Ensembl:ENSRNOG00000020513 Vega:OTTRNOG00000000809
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

Genomic context

See Becn1 in Genome Data Viewer
Location:
10q31
Exon count:
12
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (89209944..89225297, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 10 NC_005109.3 (89008975..89024328, complement)

Chromosome 10 - NC_005109.4Genomic 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 FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Apelin signaling pathway, organism-specific biosystem (from KEGG)
    Apelin signaling pathway, organism-specific biosystemApelin is an endogenous peptide capable of binding the apelin receptor (APJ), which was originally described as an orphan G-protein-coupled receptor. Apelin and APJ are widely expressed in various ti...
  • Apoptosis - multiple species, organism-specific biosystem (from KEGG)
    Apoptosis - multiple species, organism-specific biosystemApoptosis is an evolutionarily conserved process used by multicellular organisms to developmentally regulate cell number or to eliminate cells that are potentially detrimental to the organism. The ma...
  • Apoptosis - multiple species, conserved biosystem (from KEGG)
    Apoptosis - multiple species, conserved biosystemApoptosis is an evolutionarily conserved process used by multicellular organisms to developmentally regulate cell number or to eliminate cells that are potentially detrimental to the organism. The ma...
  • Autophagy - animal, organism-specific biosystem (from KEGG)
    Autophagy - animal, organism-specific biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
  • Autophagy - animal, conserved biosystem (from KEGG)
    Autophagy - animal, conserved biosystemAutophagy (or macroautophagy) is a cellular catabolic pathway involving in protein degradation, organelle turnover, and non-selective breakdown of cytoplasmic components, which is evolutionarily cons...
  • Autophagy - other, organism-specific biosystem (from KEGG)
    Autophagy - other, organism-specific biosystemAutophagy is a degradative pathway for the removal of cytoplasmic materials in eukaryotic cells, and is characterized by the formation of a double-membrane structure called the autophagosome, either ...
  • Autophagy - other, conserved biosystem (from KEGG)
    Autophagy - other, conserved biosystemAutophagy is a degradative pathway for the removal of cytoplasmic materials in eukaryotic cells, and is characterized by the formation of a double-membrane structure called the autophagosome, either ...
  • Cellular responses to stress, organism-specific biosystem (from REACTOME)
    Cellular responses to stress, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Deubiquitination, organism-specific biosystem (from REACTOME)
    Deubiquitination, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Macroautophagy, organism-specific biosystem (from REACTOME)
    Macroautophagy, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Mitophagy - animal, organism-specific biosystem (from KEGG)
    Mitophagy - animal, organism-specific biosystemMitochondria act as the energy powerhouse of the cell, and are essential for eukaryotic cells to grow and function normally. However, deleterious byproducts of oxidative phosphorylation process calle...
  • Mitophagy - animal, conserved biosystem (from KEGG)
    Mitophagy - animal, conserved biosystemMitochondria act as the energy powerhouse of the cell, and are essential for eukaryotic cells to grow and function normally. However, deleterious byproducts of oxidative phosphorylation process calle...
  • Post-translational protein modification, organism-specific biosystem (from REACTOME)
    Post-translational protein modification, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Ub-specific processing proteases, organism-specific biosystem (from REACTOME)
    Ub-specific processing proteases, organism-specific biosystemcomputationally inferred pathway (not manually curated)

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

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

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, OTTRNOP00000000627, ENSRNOT00000027868.7, OTTRNOT00000001204
    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 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005109.4 Reference Rnor_6.0 Primary Assembly

    Range
    89209944..89225297 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017596950.1XP_017452439.1  beclin-1 isoform X1

Alternate Rn_Celera

Genomic

  1. AC_000078.1 Alternate Rn_Celera

    Range
    84949343..84964691 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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