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    LRRTM1 leucine rich repeat transmembrane neuronal 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 679668, updated on 9-Dec-2024

    Summary

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    Official Symbol
    LRRTM1provided by RGD
    Official Full Name
    leucine rich repeat transmembrane neuronal 1provided by RGD
    Primary source
    RGD:1585921
    See related
    EnsemblRapid:ENSRNOG00000006093 AllianceGenome:RGD:1585921
    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
    Summary
    Involved in regulation of postsynaptic density assembly and regulation of presynapse assembly. Acts upstream of or within synapse organization. Located in excitatory synapse. Is active in glutamatergic synapse and postsynaptic membrane. Orthologous to human LRRTM1 (leucine rich repeat transmembrane neuronal 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 76.1), Testes (RPKM 10.4) and 1 other tissue See more
    Orthologs
    human mouse all
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    Genomic context

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    See LRRTM1 in Genome Data Viewer
    Location:
    4q33
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (111246213..111295638)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (109701815..109718924)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (108300927..108316373)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L6, pseudogene 15 Neighboring gene U6 spliceosomal RNA Neighboring gene catenin alpha 2 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene U11 spliceosomal RNA

    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. LRRTM1-deficient mice show a rare phenotype of avoiding small enclosures--a tentative mouse model for claustrophobia-like behaviour. Voikar V, et al. Behav Brain Res, 2013 Feb 1. PMID 23089646, Free PMC Article
    2. Impaired cognitive function and altered hippocampal synapse morphology in mice lacking Lrrtm1, a gene associated with schizophrenia. Takashima N, et al. PLoS One, 2011. PMID 21818371, Free PMC Article
    3. LRRTM1 on chromosome 2p12 is a maternally suppressed gene that is associated paternally with handedness and schizophrenia. Francks C, et al. Mol Psychiatry, 2007 Dec. PMID 17667961, Free PMC Article
    4. Circular RNA Hecw1 Regulates the Inflammatory Imbalance in Spinal Cord Injury via miR-3551-3p/LRRTM1 Axis. Ban D, et al. Appl Biochem Biotechnol, 2022 Nov. PMID 35699802
    5. 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

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Circular RNA Hecw1 Regulates the Inflammatory Imbalance in Spinal Cord Injury via miR-3551-3p/LRRTM1 Axis.
      Title: Circular RNA Hecw1 Regulates the Inflammatory Imbalance in Spinal Cord Injury via miR-3551-3p/LRRTM1 Axis.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of establishment of localization in cell ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within exploration behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within locomotory behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    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
    		  
    acts_upstream_of_or_within protein localization to synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of receptor internalization 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 
    involved_in regulation of presynapse assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of presynapse 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
    		  
    located_in axon ISO
    Inferred from Sequence Orthology
    more info
    		  
    NOT located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in excitatory synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in growth cone ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic 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 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_001395622.1 → NP_001382551.1  leucine-rich repeat transmembrane neuronal protein 1 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/Swiss-Prot
      D4A6D8
      Related
      ENSRNOP00000107518.1, ENSRNOT00000124442.1
      Conserved Domains (3) summary
      COG4886
      Location:75 → 315
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:306 → 318
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:91 → 114
      LRR_RI; leucine-rich repeat [structural motif]

    RNA

    1. NR_172650.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004

    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_086022.1 Reference GRCr8

      Range
      111246213..111295638
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006236700.5 → XP_006236762.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006236762.1

      UniProtKB/Swiss-Prot
      D4A6D8
      Conserved Domains (3) summary
      COG4886
      Location:75 → 315
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:306 → 318
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:91 → 114
      LRR_RI; leucine-rich repeat [structural motif]

    RNA

    1. XR_005503313.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    D4A6D8.1 GenPept UniProtKB/Swiss-Prot:D4A6D8

    Gene LinkOut

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

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