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Rtn1 reticulon 1 [ Mus musculus (house mouse) ]

Gene ID: 104001, updated on 5-Mar-2024

Summary

Official Symbol
Rtn1provided by MGI
Official Full Name
reticulon 1provided by MGI
Primary source
MGI:MGI:1933947
See related
Ensembl:ENSMUSG00000021087 AllianceGenome:MGI:1933947
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
Nsp
Summary
Predicted to be involved in negative regulation of amyloid-beta formation. Located in endoplasmic reticulum. Is expressed in several structures, including genitourinary system; nervous system; neural retina; olfactory epithelium; and smooth muscle tissue. Orthologous to human RTN1 (reticulon 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E18 (RPKM 186.8), whole brain E14.5 (RPKM 137.8) and 7 other tissues See more
Orthologs
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Genomic context

See Rtn1 in Genome Data Viewer
Location:
12 C3; 12 30.2 cM
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (72258523..72455828, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (72211749..72409054, complement)

Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 19135 Neighboring gene JNK1/MAPK8-associated membrane protein Neighboring gene coiled-coil domain containing 175 Neighboring gene STARR-seq mESC enhancer starr_32435 Neighboring gene zinc finger protein 146 pseudogene Neighboring gene STARR-seq mESC enhancer starr_32436 Neighboring gene predicted gene, 52013 Neighboring gene STARR-seq mESC enhancer starr_32439 Neighboring gene predicted gene, 33487 Neighboring gene leucine rich repeat containing 9

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)
  • Gene trapped (1) 
  • Targeted (4)  1 citation
  • Endonuclease-mediated (2) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC40985, 0710005K15Rik, 4930441F12Rik

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in brain development IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in endoplasmic reticulum tubular network formation IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in negative regulation of amyloid-beta formation ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron differentiation IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
located_in Golgi membrane ISO
Inferred from Sequence Orthology
more info
 
located_in dendrite IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum IDA
Inferred from Direct Assay
more info
PubMed 
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 
is_active_in endoplasmic reticulum membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in endoplasmic reticulum membrane ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in neuronal cell body IDA
Inferred from Direct Assay
more info
PubMed 
is_active_in postsynaptic density IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in smooth endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
reticulon-1
Names
neuroendocrine-specific 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_001007596.2NP_001007597.1  reticulon-1 isoform C

    See identical proteins and their annotated locations for NP_001007597.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks part of the 5' coding region, uses an alternate 5'-terminal exon, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (C) has a shorter and distinct N-terminus, compared to isoform A.
    Source sequence(s)
    AK014358, BC027091, BY615773, CX241467
    Consensus CDS
    CCDS25969.1
    UniProtKB/TrEMBL
    A3QM89, Q7M6W1
    Related
    ENSMUSP00000021497.10, ENSMUST00000021497.16
    Conserved Domains (1) summary
    pfam02453
    Location:23185
    Reticulon
  2. NM_001286448.1NP_001273377.1  reticulon-1 isoform A2

    See identical proteins and their annotated locations for NP_001273377.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks two in-frame exons in the central coding region, compared to variant 1. The encoded isoform (A2) is shorter, compared to variant 1.
    Source sequence(s)
    AK132364, BC027091, BC058579, BY615773
    UniProtKB/TrEMBL
    Q4FZ95
    Conserved Domains (1) summary
    pfam02453
    Location:83245
    Reticulon; Reticulon
  3. NM_153457.7NP_703187.2  reticulon-1 isoform A

    See identical proteins and their annotated locations for NP_703187.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (A).
    Source sequence(s)
    AK132364, BC027091, BC058579, BY615773
    Consensus CDS
    CCDS25968.1
    UniProtKB/Swiss-Prot
    Q8K0T0, Q8K4S4
    UniProtKB/TrEMBL
    Q4FJL2
    Related
    ENSMUSP00000077594.8, ENSMUST00000078505.14
    Conserved Domains (1) summary
    pfam02453
    Location:595757
    Reticulon; Reticulon

RNA

  1. NR_104446.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks several exons and uses an alternate 5'-terminal exon, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    BC027091, BY615773, CT010476
    Related
    ENSMUST00000150156.2

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000078.7 Reference GRCm39 C57BL/6J

    Range
    72258523..72455828 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_030246489.1XP_030102349.1  reticulon-1 isoform X1

    Conserved Domains (2) summary
    PHA03307
    Location:184504
    PHA03307; transcriptional regulator ICP4; Provisional
    pfam02453
    Location:514676
    Reticulon
  2. XM_006515323.3XP_006515386.1  reticulon-1 isoform X1

    See identical proteins and their annotated locations for XP_006515386.1

    Conserved Domains (2) summary
    PHA03307
    Location:184504
    PHA03307; transcriptional regulator ICP4; Provisional
    pfam02453
    Location:514676
    Reticulon
  3. XM_006515324.3XP_006515387.1  reticulon-1 isoform X1

    See identical proteins and their annotated locations for XP_006515387.1

    Conserved Domains (2) summary
    PHA03307
    Location:184504
    PHA03307; transcriptional regulator ICP4; Provisional
    pfam02453
    Location:514676
    Reticulon