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    Lrrtm3 leucine rich repeat transmembrane neuronal 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 294380, updated on 30-Mar-2024

    Summary

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    Official Symbol
    Lrrtm3provided by RGD
    Official Full Name
    leucine rich repeat transmembrane neuronal 3provided by RGD
    Primary source
    RGD:1304866
    See related
    Ensembl:ENSRNOG00000026466 AllianceGenome:RGD:1304866
    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
    Summary
    Predicted to be involved in presynapse assembly. Predicted to act upstream of or within positive regulation of amyloid-beta formation and positive regulation of synapse assembly. Predicted to be integral component of membrane. Predicted to be active in extracellular matrix; extracellular space; and glutamatergic synapse. Predicted to be integral component of postsynaptic density membrane. Orthologous to human LRRTM3 (leucine rich repeat transmembrane neuronal 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 77.6), Heart (RPKM 58.6) and 5 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    Location:
    20p11
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (24514304..24688322)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (24515627..24689669)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (25990304..26163656)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene catenin alpha 3 Neighboring gene ubiquitin-conjugating enzyme E2 S-like Neighboring gene uncharacterized LOC134483906 Neighboring gene eukaryotic translation initiation factor 3, subunit G, pseudogene 1 Neighboring gene heat shock protein family A (Hsp70) member 8, pseudogene 30

    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. LRRTM3 promotes processing of amyloid-precursor protein by BACE1 and is a positional candidate gene for late-onset Alzheimer's disease. Majercak J, et al. Proc Natl Acad Sci U S A, 2006 Nov 21. PMID 17098871, Free PMC Article
    2. LRRTM3 Regulates Excitatory Synapse Development through Alternative Splicing and Neurexin Binding. Um JW, et al. Cell Rep, 2016 Feb 2. PMID 26776509
    3. Calsyntenins function as synaptogenic adhesion molecules in concert with neurexins. Um JW, et al. Cell Rep, 2014 Mar 27. PMID 24613359, Free PMC Article
    4. 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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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of amyloid-beta formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of synapse assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of presynapse assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in extracellular matrix IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat transmembrane neuronal protein 3

    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_001106387.2 → NP_001099857.1  leucine-rich repeat transmembrane neuronal protein 3

      See identical proteins and their annotated locations for NP_001099857.1

      Status: PROVISIONAL

      Source sequence(s)
      JACYVU010000324
      UniProtKB/Swiss-Prot
      D3ZAL8
      Related
      ENSRNOP00000036369.2, ENSRNOT00000033980.3
      Conserved Domains (4) summary
      smart00013
      Location:33 → 61
      LRRNT; Leucine rich repeat N-terminal domain
      cd00116
      Location:81 → 300
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:66 → 86
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:133 → 193
      LRR_8; Leucine rich repeat

    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_086038.1 Reference GRCr8

      Range
      24514304..24688322
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    D3ZAL8.1 GenPept UniProtKB/Swiss-Prot:D3ZAL8

    Gene LinkOut

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

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