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    Lrtm2 leucine-rich repeats and transmembrane domains 2 [ Mus musculus (house mouse) ]

    Gene ID: 211187, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Lrtm2provided by MGI
    Official Full Name
    leucine-rich repeats and transmembrane domains 2provided by MGI
    Primary source
    MGI:MGI:2141485
    See related
    Ensembl:ENSMUSG00000055003 AllianceGenome:MGI:2141485
    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
    A230084J22
    Summary
    Predicted to enable Roundabout binding activity and heparin binding activity. Acts upstream of or within positive regulation of synapse assembly. Predicted to be located in membrane. Orthologous to human LRTM2 (leucine rich repeats and transmembrane domains 2). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in frontal lobe adult (RPKM 13.1), cortex adult (RPKM 11.3) and 6 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Lrtm2 in Genome Data Viewer
    Location:
    6 F1; 6 56.73 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (119292094..119315009, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (119315133..119332270, complement)

    Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene calcium channel, voltage-dependent, L type, alpha 1C subunit Neighboring gene STARR-positive B cell enhancer ABC_E10404 Neighboring gene decapping mRNA 1B Neighboring gene calcium channel, voltage-dependent, alpha 2/delta subunit 4 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:119286263-119286553 Neighboring gene predicted gene, 52874 Neighboring gene STARR-positive B cell enhancer ABC_E9099 Neighboring gene adiponectin receptor 2 Neighboring gene STARR-seq mESC enhancer starr_17147 Neighboring gene STARR-seq mESC enhancer starr_17149 Neighboring gene wingless-type MMTV integration site family, member 5B Neighboring gene predicted gene, 40397

    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. Leucine-Rich Repeats and Transmembrane Domain 2 Controls Protein Sorting in the Striatal Projection System and Its Deficiency Causes Disturbances in Motor Responses and Monoamine Dynamics. Ichise M, et al. Front Mol Neurosci, 2022. PMID 35615067, Free PMC Article
    2. Calsyntenins function as synaptogenic adhesion molecules in concert with neurexins. Um JW, et al. Cell Rep, 2014 Mar 27. PMID 24613359, Free PMC Article
    3. In vivo and in vitro investigations of heterozygous nebulin knock-out mice disclose a mild skeletal muscle phenotype. Gineste C, et al. Neuromuscul Disord, 2013 Apr. PMID 23375831
    4. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article
    5. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of synapse assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat and transmembrane domain-containing protein 2

    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_001172207.2 → NP_001165678.1  leucine-rich repeat and transmembrane domain-containing protein 2 precursor

      See identical proteins and their annotated locations for NP_001165678.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1-4 all encode the same protein.
      Source sequence(s)
      AC115816
      Consensus CDS
      CCDS20472.1
      UniProtKB/Swiss-Prot
      Q8BGX3
      Related
      ENSMUSP00000126661.2, ENSMUST00000168793.8
      Conserved Domains (6) summary
      sd00031
      Location:51 → 93
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:166 → 186
      LRR_RI; leucine-rich repeat [structural motif]
      pfam01462
      Location:38 → 67
      LRRNT; Leucine rich repeat N-terminal domain
      pfam13855
      Location:92 → 152
      LRR_8; Leucine rich repeat
      cl15307
      Location:198 → 247
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cl27544
      Location:261 → 335
      Herpes_glycop_D; Herpesvirus glycoprotein D/GG/GX domain

    2. NM_001411507.1 → NP_001398436.1  leucine-rich repeat and transmembrane domain-containing protein 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AC115816
      UniProtKB/Swiss-Prot
      Q8BGX3

    3. NM_001411508.1 → NP_001398437.1  leucine-rich repeat and transmembrane domain-containing protein 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AC115816
      UniProtKB/Swiss-Prot
      Q8BGX3

    4. NM_172492.4 → NP_766080.1  leucine-rich repeat and transmembrane domain-containing protein 2 precursor

      See identical proteins and their annotated locations for NP_766080.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the protein. Variants 1-4 all encode the same protein.
      Source sequence(s)
      AC115816
      Consensus CDS
      CCDS20472.1
      UniProtKB/Swiss-Prot
      Q8BGX3
      Related
      ENSMUSP00000108376.2, ENSMUST00000112756.8
      Conserved Domains (6) summary
      sd00031
      Location:51 → 93
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:166 → 186
      LRR_RI; leucine-rich repeat [structural motif]
      pfam01462
      Location:38 → 67
      LRRNT; Leucine rich repeat N-terminal domain
      pfam13855
      Location:92 → 152
      LRR_8; Leucine rich repeat
      cl15307
      Location:198 → 247
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cl27544
      Location:261 → 335
      Herpes_glycop_D; Herpesvirus glycoprotein D/GG/GX domain

    RNA

    1. NR_177279.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC115816

    2. NR_177280.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC115816

    3. NR_177281.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC115816

    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
      119292094..119315009 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036166005.1 → XP_036021898.1  leucine-rich repeat and transmembrane domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      Q8BGX3
      Conserved Domains (6) summary
      sd00031
      Location:51 → 93
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:166 → 186
      LRR_RI; leucine-rich repeat [structural motif]
      pfam01462
      Location:38 → 67
      LRRNT; Leucine rich repeat N-terminal domain
      pfam13855
      Location:92 → 152
      LRR_8; Leucine rich repeat
      cl15307
      Location:198 → 247
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cl27544
      Location:261 → 335
      Herpes_glycop_D; Herpesvirus glycoprotein D/GG/GX domain

    2. XM_036166006.1 → XP_036021899.1  leucine-rich repeat and transmembrane domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      Q8BGX3
      Conserved Domains (6) summary
      sd00031
      Location:51 → 93
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:166 → 186
      LRR_RI; leucine-rich repeat [structural motif]
      pfam01462
      Location:38 → 67
      LRRNT; Leucine rich repeat N-terminal domain
      pfam13855
      Location:92 → 152
      LRR_8; Leucine rich repeat
      cl15307
      Location:198 → 247
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
      cl27544
      Location:261 → 335
      Herpes_glycop_D; Herpesvirus glycoprotein D/GG/GX domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BGX3.1 GenPept UniProtKB/Swiss-Prot:Q8BGX3

    Gene LinkOut

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

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