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    Lrrtm2 leucine rich repeat transmembrane neuronal 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 685472, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Lrrtm2provided by RGD
    Official Full Name
    leucine rich repeat transmembrane neuronal 2provided by RGD
    Primary source
    RGD:1593785
    See related
    EnsemblRapid:ENSRNOG00000047085 AllianceGenome:RGD:1593785
    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
    Enables neurexin family protein binding activity. Involved in regulation of postsynaptic density assembly. Acts upstream of or within synapse organization. Located in excitatory synapse. Is active in several cellular components, including Schaffer collateral - CA1 synapse; hippocampal mossy fiber to CA3 synapse; and postsynaptic density membrane. Orthologous to human LRRTM2 (leucine rich repeat transmembrane neuronal 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 182.7), Heart (RPKM 72.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lrrtm2 in Genome Data Viewer
    Location:
    18p11
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (27091919..27096967, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (26817816..26822864, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (28012877..28017925, complement)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene U6 spliceosomal RNA Neighboring gene transfer RNA proline (anticodon AGG) 77 Neighboring gene catenin alpha 1 Neighboring gene SIL1 nucleotide exchange factor Neighboring gene small nucleolar RNA U13 Neighboring gene uncharacterized LOC102550858

    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. Leucine-rich repeat transmembrane proteins are essential for maintenance of long-term potentiation. Soler-Llavina GJ, et al. Neuron, 2013 Aug 7. PMID 23931994, Free PMC Article
    2. An unbiased expression screen for synaptogenic proteins identifies the LRRTM protein family as synaptic organizers. Linhoff MW, et al. Neuron, 2009 Mar 12. PMID 19285470, Free PMC Article
    3. Neuroligins/LRRTMs prevent activity- and Ca2+/calmodulin-dependent synapse elimination in cultured neurons. Ko J, et al. J Cell Biol, 2011 Jul 25. PMID 21788371, Free PMC Article
    4. Truncating mutations in NRXN2 and NRXN1 in autism spectrum disorders and schizophrenia. Gauthier J, et al. Hum Genet, 2011 Oct. PMID 21424692, Free PMC Article
    5. Proteomic Analysis of Unbounded Cellular Compartments: Synaptic Clefts. Loh KH, et al. Cell, 2016 Aug 25. PMID 27565350, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables neurexin family protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within long-term synaptic potentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of receptor internalization 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 postsynaptic density assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of postsynaptic density assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within synapse organization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within synapse organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in GABA-ergic synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in Schaffer collateral - CA1 synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in Schaffer collateral - CA1 synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in excitatory synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    is_active_in hippocampal mossy fiber to CA3 synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in hippocampal mossy fiber to CA3 synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    is_active_in postsynaptic density membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic density membrane IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    is_active_in postsynaptic specialization membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat transmembrane neuronal protein 2
    Names
    leucine-rich repeat neuronal 2 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_001109469.1 → NP_001102939.1  leucine-rich repeat transmembrane neuronal protein 2 precursor

      See identical proteins and their annotated locations for NP_001102939.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473974
      UniProtKB/Swiss-Prot
      D4A7P2
      Related
      ENSRNOP00000067172.2, ENSRNOT00000075420.4
      Conserved Domains (3) summary
      cd00116
      Location:73 → 311
      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:134 → 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_086036.1 Reference GRCr8

      Range
      27091919..27096967 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    D4A7P2.1 GenPept UniProtKB/Swiss-Prot:D4A7P2

    Gene LinkOut

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

    Chemical Information
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