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

Gene ID: 211187, updated on 18-Apr-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. 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 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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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

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 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

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