Format

Send to:

Choose Destination
    • Showing Current items.

    Rtn3 reticulon 3 [ Mus musculus (house mouse) ]

    Gene ID: 20168, updated on 5-Sep-2021

    Summary

    Official Symbol
    Rtn3provided by MGI
    Official Full Name
    reticulon 3provided by MGI
    Primary source
    MGI:MGI:1339970
    See related
    Ensembl:ENSMUSG00000024758
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    RTN3-A1
    Expression
    Ubiquitous expression in cortex adult (RPKM 114.3), frontal lobe adult (RPKM 104.4) and 28 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Rtn3 in Genome Data Viewer
    Location:
    19; 19 A
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (7403260..7460656, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (7425895..7483291, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 19 NC_000085.5 (7500391..7557779, complement)

    Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 18842 Neighboring gene microRNA 6991 Neighboring gene zinc finger translocation associated Neighboring gene atlastin GTPase 3 Neighboring gene phospholipase A and acyltransferase 3

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC105197

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in integral component of membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in synapse EXP
    Inferred from Experiment
    more info
    PubMed 
    located_in synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    reticulon-3
    Names
    Nsp-like II

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001003933.2NP_001003933.1  reticulon-3 isoform 2

      See identical proteins and their annotated locations for NP_001003933.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2, also known as RTN3-A2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC129188, AY427822, BY295849
      Consensus CDS
      CCDS29525.1
      UniProtKB/Swiss-Prot
      Q9ES97
      Related
      ENSMUSP00000085496.5, ENSMUST00000088171.12
      Conserved Domains (1) summary
      pfam02453
      Location:757921
      Reticulon; Reticulon
    2. NM_001003934.2NP_001003934.1  reticulon-3 isoform 1

      See identical proteins and their annotated locations for NP_001003934.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1, also known as Rtn3-A1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AC129188, AY750849, BY295849
      Consensus CDS
      CCDS37906.1
      UniProtKB/Swiss-Prot
      Q9ES97
      Related
      ENSMUSP00000065810.6, ENSMUST00000065304.13
      Conserved Domains (1) summary
      pfam02453
      Location:776940
      Reticulon; Reticulon
    3. NM_001271486.1NP_001258415.1  reticulon-3 isoform 5

      See identical proteins and their annotated locations for NP_001258415.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame splice site, compared to variant 1. The encoded isoform (5) is shorter than isoform 1.
      Source sequence(s)
      AC129188, AK032109, AY427822, BY295849
      Consensus CDS
      CCDS89331.1
      UniProtKB/Swiss-Prot
      Q9ES97
      Related
      ENSMUSP00000158024.2, ENSMUST00000235593.2
      Conserved Domains (1) summary
      pfam02453
      Location:455619
      Reticulon; Reticulon
    4. NM_001271487.1NP_001258416.1  reticulon-3 isoform 6

      See identical proteins and their annotated locations for NP_001258416.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6, also known as RTN3-B2) lacks an alternate in-frame exon, compared to variant 1. The encoded isoform (6) is shorter than isoform 1.
      Source sequence(s)
      AC129188, AY750849, BY295849
      Consensus CDS
      CCDS70927.1
      UniProtKB/Swiss-Prot
      Q9ES97
      Related
      ENSMUSP00000025667.8, ENSMUST00000025667.14
      Conserved Domains (1) summary
      pfam02453
      Location:68232
      Reticulon; Reticulon
    5. NM_053076.3NP_444306.1  reticulon-3 isoform 4

      See identical proteins and their annotated locations for NP_444306.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4, also known as RTN3-B1) lacks two alternate in-frame exons, compared to variant 1. The encoded isoform (4) is shorter than isoform 1.
      Source sequence(s)
      AC129188, AK036892, BY295849
      Consensus CDS
      CCDS29526.1
      UniProtKB/Swiss-Prot
      Q9ES97
      Related
      ENSMUSP00000085494.7, ENSMUST00000088169.7
      Conserved Domains (1) summary
      pfam02453
      Location:49213
      Reticulon

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000085.7 Reference GRCm39 C57BL/6J

      Range
      7403260..7460656 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017318088.2XP_017173577.1  reticulon-3 isoform X1

      Conserved Domains (1) summary
      pfam02453
      Location:48212
      Reticulon

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001003930.1: Suppressed sequence

      Description
      NM_001003930.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Support Center