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    Ntm neurotrimin [ Rattus norvegicus (Norway rat) ]

    Gene ID: 50864, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Ntmprovided by RGD
    Official Full Name
    neurotriminprovided by RGD
    Primary source
    RGD:620958
    See related
    EnsemblRapid:ENSRNOG00000066437 AllianceGenome:RGD:620958
    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
    Hnt; GP65; RNU16845
    Summary
    Involved in cerebellum development; negative regulation of neuron projection development; and response to estradiol. Located in several cellular components, including cell surface; excitatory synapse; and perinuclear region of cytoplasm. Is active in hippocampal mossy fiber to CA3 synapse; postsynaptic density membrane; and presynaptic active zone membrane. Orthologous to human NTM (neurotrimin). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 349.3) and Uterus (RPKM 15.2) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Ntm in Genome Data Viewer
    Location:
    8q13
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (35634929..36625081, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (27376582..28366604, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (30039332..31041755, complement)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134480005 Neighboring gene opioid binding protein/cell adhesion molecule-like Neighboring gene endothelial differentiation-related factor 1, pseudogene 1 Neighboring gene uncharacterized LOC120094318 Neighboring gene uncharacterized LOC134480150 Neighboring gene uncharacterized LOC120094317 Neighboring gene uncharacterized LOC134480151 Neighboring gene uncharacterized LOC134480006 Neighboring gene uncharacterized LOC108351666 Neighboring gene uncharacterized LOC134480007

    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
    • 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. Neurotrimin expression during cerebellar development suggests roles in axon fasciculation and synaptogenesis. Chen S, et al. J Neurocytol, 2001 Nov. PMID 12373100
    2. Complementary expression and heterophilic interactions between IgLON family members neurotrimin and LAMP. Gil OD, et al. J Neurobiol, 2002 Jun 5. PMID 11984841
    3. Glycosylation analysis of IgLON family proteins in rat brain by liquid chromatography and multiple-stage mass spectrometry. Itoh S, et al. Biochemistry, 2008 Sep 23. PMID 18729387
    4. Neurotrimin is an estrogen-regulated determinant of peripheral sympathetic innervation. Krizsan-Agbas D, et al. J Neurosci Res, 2008 Nov 1. PMID 18627025, Free PMC Article
    5. Ectodomain shedding of Limbic System-Associated Membrane Protein (LSAMP) by ADAM Metallopeptidases promotes neurite outgrowth in DRG neurons. Sanz RL, et al. Sci Rep, 2017 Aug 11. PMID 28801670, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Neurotrimin and LSAMP were identified as ADAM10 substrates that are shed from the cell surface of dorsal root ganglion (DRGs) neurons. Overexpression of LSAMP and NTM suppresses outgrowth from DRG neurons. Furthermore, LSAMP loss of function decreases the outgrowth sensitivity to an ADAM10 inhibitor.
      Title: Ectodomain shedding of Limbic System-Associated Membrane Protein (LSAMP) by ADAM Metallopeptidases promotes neurite outgrowth in DRG neurons.
    2. a role for neurotrimin in mediating estrogen-induced sympathetic pruning in some peripheral targets.
      Title: Neurotrimin is an estrogen-regulated determinant of peripheral sympathetic innervation.
    3. The spatio-temporal expression pattern of neurotrimin suggests that it plays a role in axonal fasciculation of specific cerebellar systems and may also be involved in the formation of excitatory synapses and their stabilization into adulthood.
      Title: Neurotrimin expression during cerebellar development suggests roles in axon fasciculation and synaptogenesis.
    4. homophilic and heterophilic interactions between IgLON family members are likely to play a role in the specification of neuronal projections via growth promoting and inhibiting effects, respectively.
      Title: Complementary expression and heterophilic interactions between IgLON family members neurotrimin and LAMP.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in cell adhesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cerebellum development IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in negative regulation of neuron projection development IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in response to estradiol IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in axon IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cell surface IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in excitatory synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in hippocampal mossy fiber to CA3 synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in perinuclear region of cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in postsynaptic density membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in presynaptic active zone membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    neurotrimin
    Names
    protein CEPU-1

    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_001431454.1 → NP_001418383.1  neurotrimin isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718

    2. NM_001431455.1 → NP_001418384.1  neurotrimin isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718

    3. NM_001431456.1 → NP_001418385.1  neurotrimin isoform 3 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718

    4. NM_001431457.1 → NP_001418386.1  neurotrimin isoform 4 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718

    5. NM_001431458.1 → NP_001418387.1  neurotrimin isoform 5 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718

    6. NM_001431459.1 → NP_001418388.1  neurotrimin isoform 6 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718

    7. NM_001431460.1 → NP_001418389.1  neurotrimin isoform 7 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718
      UniProtKB/TrEMBL
      A0A8I6GEH9

    8. NM_001431461.1 → NP_001418390.1  neurotrimin isoform 9

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718

    9. NM_017354.3 → NP_059050.2  neurotrimin isoform 8 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000008
      UniProtKB/Swiss-Prot
      Q62718
      UniProtKB/TrEMBL
      A0A8I6AE09, A6JYE7
      Conserved Domains (3) summary
      pfam13927
      Location:136 → 205
      Ig_3; Immunoglobulin domain
      cd00096
      Location:223 → 229
      Ig; putative Ig strand A [structural motif]
      cl11960
      Location:223 → 307
      Ig; Immunoglobulin domain

    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_086026.1 Reference GRCr8

      Range
      35634929..36625081 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039082005.2 → XP_038937933.1  neurotrimin isoform X3

      Conserved Domains (3) summary
      pfam13927
      Location:136 → 205
      Ig_3; Immunoglobulin domain
      cd00096
      Location:223 → 229
      Ig; putative Ig strand A [structural motif]
      cl11960
      Location:223 → 307
      Ig; Immunoglobulin domain

    2. XM_039082007.2 → XP_038937935.1  neurotrimin isoform X4

      Related
      ENSRNOP00000085993.1, ENSRNOT00000107198.2
      Conserved Domains (3) summary
      pfam13927
      Location:136 → 205
      Ig_3; Immunoglobulin domain
      cd00096
      Location:223 → 229
      Ig; putative Ig strand A [structural motif]
      cl11960
      Location:223 → 307
      Ig; Immunoglobulin domain

    3. XM_017595865.3 → XP_017451354.1  neurotrimin isoform X1

      Related
      ENSRNOP00000099382.1, ENSRNOT00000135693.1
      Conserved Domains (3) summary
      pfam13927
      Location:136 → 205
      Ig_3; Immunoglobulin domain
      cd00096
      Location:223 → 229
      Ig; putative Ig strand A [structural motif]
      cl11960
      Location:223 → 307
      Ig; Immunoglobulin domain

    4. XM_039082006.2 → XP_038937934.1  neurotrimin isoform X2

      Related
      ENSRNOP00000090247.2, ENSRNOT00000094487.2
      Conserved Domains (3) summary
      pfam13927
      Location:136 → 205
      Ig_3; Immunoglobulin domain
      cd00096
      Location:223 → 229
      Ig; putative Ig strand A [structural motif]
      cl11960
      Location:223 → 307
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q62718.1 GenPept UniProtKB/Swiss-Prot:Q62718

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