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    Lrtm2 leucine-rich repeats and transmembrane domains 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 680883, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Lrtm2provided by RGD
    Official Full Name
    leucine-rich repeats and transmembrane domains 2provided by RGD
    Primary source
    RGD:1587001
    See related
    EnsemblRapid:ENSRNOG00000007508 AllianceGenome:RGD:1587001
    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 enable Roundabout binding activity and heparin binding activity. Predicted to be involved in axon guidance and negative chemotaxis. Predicted to act upstream of or within positive regulation of synapse assembly. Predicted to be integral component of membrane. Orthologous to human LRTM2 (leucine rich repeats and transmembrane domains 2). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 51.3), Liver (RPKM 49.1) and 4 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lrtm2 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (154158165..154180389, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (152485863..152508248, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (151375568..151397485, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene calcium voltage-gated channel subunit alpha1 C Neighboring gene uncharacterized LOC134486628 Neighboring gene decapping mRNA 1B Neighboring gene calcium voltage-gated channel auxiliary subunit alpha2delta 4 Neighboring gene uncharacterized LOC134486630 Neighboring gene U6 spliceosomal RNA Neighboring gene adiponectin receptor 2

    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 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. Calsyntenins function as synaptogenic adhesion molecules in concert with neurexins. Um JW, et al. Cell Rep, 2014 Mar 27. PMID 24613359, Free PMC Article
    2. 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

    Function Evidence Code Pubs
    enables Roundabout binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables heparin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative chemotaxis IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within positive regulation of synapse assembly ISO
    Inferred from Sequence Orthology
    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_001109430.2 → NP_001102900.1  leucine-rich repeat and transmembrane domain-containing protein 2

      See identical proteins and their annotated locations for NP_001102900.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A6IL81, D3ZPP7
      Related
      ENSRNOP00000010238.3, ENSRNOT00000010238.6
      Conserved Domains (6) summary
      smart00013
      Location:38 → 71
      LRRNT; Leucine rich repeat N-terminal domain
      sd00031
      Location:51 → 93
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:166 → 186
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:93 → 132
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:92 → 152
      LRR_8; Leucine rich repeat
      cl15307
      Location:198 → 247
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    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
      154158165..154180389 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017592888.3 → XP_017448377.1  leucine-rich repeat and transmembrane domain-containing protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IL81, D3ZPP7
      Conserved Domains (6) summary
      smart00013
      Location:38 → 71
      LRRNT; Leucine rich repeat N-terminal domain
      sd00031
      Location:51 → 93
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:166 → 186
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:93 → 132
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:92 → 152
      LRR_8; Leucine rich repeat
      cl15307
      Location:198 → 247
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    2. XM_017592890.3 → XP_017448379.1  leucine-rich repeat and transmembrane domain-containing protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IL81, D3ZPP7
      Conserved Domains (6) summary
      smart00013
      Location:38 → 71
      LRRNT; Leucine rich repeat N-terminal domain
      sd00031
      Location:51 → 93
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:166 → 186
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:93 → 132
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:92 → 152
      LRR_8; Leucine rich repeat
      cl15307
      Location:198 → 247
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
    Nucleotide Protein Strain
    Heading Accession and Version

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