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    Ncln nicalin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 314648, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Nclnprovided by RGD
    Official Full Name
    nicalinprovided by RGD
    Primary source
    RGD:1309355
    See related
    EnsemblRapid:ENSRNOG00000004793 AllianceGenome:RGD:1309355
    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
    RGD1309355
    Summary
    Predicted to enable ribosome binding activity. Predicted to be involved in several processes, including multi-pass transmembrane protein insertion into ER membrane; protein stabilization; and regulation of protein complex stability. Predicted to be located in endoplasmic reticulum and membrane. Predicted to be part of multi-pass translocon complex. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human NCLN (nicalin). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 165.8), Kidney (RPKM 148.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ncln in Genome Data Viewer
    Location:
    7q11
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 7 NC_086025.1 (8862324..8872699)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 7 NC_051342.1 (8211978..8221938)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 7 NC_005106.4 (11081544..11091583)

    Chromosome 7 - NC_086025.1Genomic Context describing neighboring genes Neighboring gene G protein subunit alpha 15 Neighboring gene sphingosine-1-phosphate receptor 4 Neighboring gene CUGBP, Elav-like family member 5 Neighboring gene nuclear factor I/C Neighboring gene uncharacterized LOC120093769

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Transmembrane protein 147 (TMEM147) is a novel component of the Nicalin-NOMO protein complex. Dettmer U, et al. J Biol Chem, 2010 Aug 20. PMID 20538592, Free PMC Article
    2. Defining the membrane proteome of NK cells. Ghosh D, et al. J Mass Spectrom, 2010 Jan. PMID 19946888
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ribosome binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ribosome binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables ribosome binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Process Evidence Code Pubs
    involved_in multi-pass transmembrane protein insertion into ER membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in multi-pass transmembrane protein insertion into ER membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in multi-pass transmembrane protein insertion into ER membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein stabilization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of protein complex stability IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of protein complex stability ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of protein-containing complex assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of protein-containing complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of signal transduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of multi-pass translocon complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of multi-pass translocon complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of multi-pass translocon complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    BOS complex subunit NCLN
    Names
    nicalin homolog
    nicastrin-like 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_001014082.1 → NP_001014104.1  BOS complex subunit NCLN precursor

      See identical proteins and their annotated locations for NP_001014104.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083785
      UniProtKB/Swiss-Prot
      Q5XIA1
      UniProtKB/TrEMBL
      A6K875, A6K876
      Related
      ENSRNOP00000077163.2, ENSRNOT00000094550.2
      Conserved Domains (1) summary
      cd03882
      Location:130 → 429
      M28_nicalin_like; M28 Zn-Peptidase Nicalin, Nicastrin-like protein

    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

    1. NC_086025.1 Reference GRCr8

      Range
      8862324..8872699
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006240943.3 → XP_006241005.1  BOS complex subunit NCLN isoform X1

      UniProtKB/TrEMBL
      A0A0H2UHD9, A6K876
      Conserved Domains (1) summary
      cd03882
      Location:130 → 429
      M28_nicalin_like; M28 Zn-Peptidase Nicalin, Nicastrin-like protein
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5XIA1.1 GenPept UniProtKB/Swiss-Prot:Q5XIA1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Other Literature Sources
    Chemical Information
    Molecular Biology Databases
    Research Materials
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