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Lrrtm1 leucine rich repeat transmembrane neuronal 1 [ Mus musculus (house mouse) ]

Gene ID: 74342, updated on 21-Apr-2024

Summary

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Official Symbol
Lrrtm1provided by MGI
Official Full Name
leucine rich repeat transmembrane neuronal 1provided by MGI
Primary source
MGI:MGI:2389173
See related
Ensembl:ENSMUSG00000060780 AllianceGenome:MGI:2389173
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
4632401D06Rik
Summary
Acts upstream of or within several processes, including long-term synaptic potentiation; negative regulation of receptor internalization; and positive regulation of synapse assembly. Predicted to be located in endoplasmic reticulum; excitatory synapse; and growth cone. Predicted to be integral component of membrane. Predicted to be active in GABA-ergic synapse; extracellular matrix; and extracellular space. Predicted to be integral component of postsynaptic specialization membrane. Is expressed in several structures, including central nervous system; future brain; limb; peripheral nervous system; and sensory organ. Used to study schizophrenia. Orthologous to human LRRTM1 (leucine rich repeat transmembrane neuronal 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E18 (RPKM 9.8), cortex adult (RPKM 6.8) and 7 other tissues See more
Orthologs
human all
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Genomic context

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Location:
6 C3; 6 33.89 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (77192762..77236898)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (77229210..77259915)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_16373 Neighboring gene predicted gene, 38836 Neighboring gene predicted gene, 31860 Neighboring gene STARR-seq mESC enhancer starr_16374 Neighboring gene catenin alpha 2 Neighboring gene RIKEN cDNA 6330415B21 gene Neighboring gene STARR-seq mESC enhancer starr_16379 Neighboring gene predicted gene, 38837

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Pericyte heterogeneity identified by 3D ultrastructural analysis of the microvessel wall. Abdelazim H, et al. Front Physiol, 2022. PMID 36589416, Free PMC Article
  2. Schizophrenia-associated LRRTM1 regulates cognitive behavior through controlling synaptic function in the mediodorsal thalamus. Karimi B, et al. Mol Psychiatry, 2021 Nov. PMID 33981006
  3. Distinct but overlapping roles of LRRTM1 and LRRTM2 in developing and mature hippocampal circuits. Dhume SH, et al. Elife, 2022 Jun 6. PMID 35662394, Free PMC Article
  4. Spinal caspase-3 contributes to tibial fracture-associated postoperative allodynia via up-regulation of LRRTM1 expression in mice. Zhang L, et al. Neurosci Lett, 2020 Nov 20. PMID 33069813
  5. LRTM1 promotes the differentiation of myoblast cells by negatively regulating the FGFR1 signaling pathway. Li HK, et al. Exp Cell Res, 2020 Nov 1. PMID 32841643

See all (38) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Concerted roles of LRRTM1 and SynCAM 1 in organizing prefrontal cortex synapses and cognitive functions.
    Title: Concerted roles of LRRTM1 and SynCAM 1 in organizing prefrontal cortex synapses and cognitive functions.
  2. Distinct but overlapping roles of LRRTM1 and LRRTM2 in developing and mature hippocampal circuits.
    Title: Distinct but overlapping roles of LRRTM1 and LRRTM2 in developing and mature hippocampal circuits.
  3. Schizophrenia-associated LRRTM1 regulates cognitive behavior through controlling synaptic function in the mediodorsal thalamus.
    Title: Schizophrenia-associated LRRTM1 regulates cognitive behavior through controlling synaptic function in the mediodorsal thalamus.
  4. Spinal caspase-3 contributes to tibial fracture-associated postoperative allodynia via up-regulation of LRRTM1 expression in mice.
    Title: Spinal caspase-3 contributes to tibial fracture-associated postoperative allodynia via up-regulation of LRRTM1 expression in mice.
  5. LRTM1 promotes the differentiation of myoblast cells by negatively regulating the FGFR1 signaling pathway.
    Title: LRTM1 promotes the differentiation of myoblast cells by negatively regulating the FGFR1 signaling pathway.
  6. Using an unbiased transcriptomics approach and targeted mutant mice, the authors discovered a critical role for the synaptic adhesion molecule Leucine Rich Repeat Transmembrane Neuronal 1 (LRRTM1) in the emergence of retinothalamic convergence.
    Title: LRRTM1 underlies synaptic convergence in visual thalamus.
  7. Genetic deletion of LRRTM1,2 in vivo in CA1 neurons using Cre recombinase-expressing lentiviruses dramatically impaired long-term potentiation (LTP), an impairment that was rescued by simultaneous expression of LRRTM2, but not LRRTM4.
    Title: Deletion of LRRTM1 and LRRTM2 in adult mice impairs basal AMPA receptor transmission and LTP in hippocampal CA1 pyramidal neurons.
  8. Data indicate that neural Cell Adhesion Molecules Lrrtm1 and Lrrtm2 mRNA expression is controlled by synaptic activity and nuclear calcium signaling.
    Title: Nuclear calcium signaling induces expression of the synaptic organizers Lrrtm1 and Lrrtm2.
  9. This study demonistrated that LRRTM1 is essential for maintenance of long-term potentiation in mice hippocampus.
    Title: Leucine-rich repeat transmembrane proteins are essential for maintenance of long-term potentiation.
  10. LRRTM1-knockout mice exhibit an extraordinary phenotype of avoiding small enclosures.
    Title: LRRTM1-deficient mice show a rare phenotype of avoiding small enclosures--a tentative mouse model for claustrophobia-like behaviour.
Submit: New GeneRIF Correction See all GeneRIFs (12)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (4) 

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 MGI

Process Evidence Code Pubs
acts_upstream_of establishment of localization in cell IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within exploration behavior IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within locomotory behavior IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within long-term synaptic potentiation IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within negative regulation of receptor internalization IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within positive regulation of synapse assembly IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within protein localization to synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of receptor internalization IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in regulation of postsynaptic density assembly ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of presynapse assembly ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within synapse organization IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within synapse organization IMP
Inferred from Mutant Phenotype
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
  
located_in endoplasmic reticulum ISO
Inferred from Sequence Orthology
more info
  
located_in excitatory synapse ISO
Inferred from Sequence Orthology
more info
  
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
  
located_in growth cone ISO
Inferred from Sequence Orthology
more info
  
located_in membrane ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
located_in plasma membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in postsynaptic membrane ISO
Inferred from Sequence Orthology
more info
  
is_active_in postsynaptic specialization membrane ISO
Inferred from Sequence Orthology
more info
  
located_in synapse IEA
Inferred from Electronic Annotation
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_001362109.1 → NP_001349038.1  leucine-rich repeat transmembrane neuronal protein 1 precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
    Source sequence(s)
    AC121356
    Consensus CDS
    CCDS39522.1
    UniProtKB/Swiss-Prot
    Q3UVX1, Q8K377
    Related
    ENSMUSP00000124373.2, ENSMUST00000161677.2
    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]

  2. NM_028880.4 → NP_083156.2  leucine-rich repeat transmembrane neuronal protein 1 precursor

    See identical proteins and their annotated locations for NP_083156.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) and variant 2 both encode the same protein.
    Source sequence(s)
    AC121356
    Consensus CDS
    CCDS39522.1
    UniProtKB/Swiss-Prot
    Q3UVX1, Q8K377
    Related
    ENSMUSP00000125207.2, ENSMUST00000159616.2
    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_155299.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' end compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC121356

  2. NR_155300.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' and 3' ends compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AC121356

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    77192762..77236898
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036152373.1 → XP_036008266.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1, Q8K377
    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]

  2. XM_030255644.2 → XP_030111504.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1, Q8K377
    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]

  3. XM_036152372.1 → XP_036008265.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1, Q8K377
    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]

  4. XM_036152371.1 → XP_036008264.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1, Q8K377
    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]
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8K377.1 GenPept UniProtKB/Swiss-Prot:Q8K377

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