U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Lrtm1 leucine-rich repeats and transmembrane domains 1 [ Mus musculus (house mouse) ]

Gene ID: 319476, updated on 14-Nov-2024

Summary

Go to the top of the page Help
Official Symbol
Lrtm1provided by MGI
Official Full Name
leucine-rich repeats and transmembrane domains 1provided by MGI
Primary source
MGI:MGI:2442106
See related
Ensembl:ENSMUSG00000045776 AllianceGenome:MGI:2442106
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
A930016D02Rik
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. Is expressed in head. Orthologous to human LRTM1 (leucine rich repeats and transmembrane domains 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in heart adult (RPKM 33.2) and liver adult (RPKM 2.3) See more
Orthologs
human all
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Lrtm1 in Genome Data Viewer
Location:
14 A3; 14 16.8 cM
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (28740165..28755599)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (29018208..29033642)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein L5 pseudogene Neighboring gene predicted gene, 35217 Neighboring gene calcium channel, voltage-dependent, alpha2/delta subunit 3 Neighboring gene STARR-seq mESC enhancer starr_36285 Neighboring gene STARR-seq mESC enhancer starr_36286 Neighboring gene peptidylprolyl isomerase A pseudogene 15 Neighboring gene STARR-seq mESC enhancer starr_36287 Neighboring gene STARR-seq mESC enhancer starr_36288 Neighboring gene STARR-seq mESC enhancer starr_36289 Neighboring gene STARR-seq mESC enhancer starr_36290 Neighboring gene STARR-seq mESC enhancer starr_36291 Neighboring gene predicted gene, 41118 Neighboring gene predicted gene, 57619

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • Project title: Mouse ENCODE transcriptome data 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

Go to the top of the pageHelp

Related articles in PubMed

  1. Examination of FGFRL1 as a candidate gene for diaphragmatic defects at chromosome 4p16.3 shows that Fgfrl1 null mice have reduced expression of Tpm3, sarcomere genes and Lrtm1 in the diaphragm. LopezJimenez N, et al. Hum Genet, 2010 Mar. PMID 20024584, Free PMC Article
  2. Coordinately Co-opted Multiple Transposable Elements Constitute an Enhancer for wnt5a Expression in the Mammalian Secondary Palate. Nishihara H, et al. PLoS Genet, 2016 Oct. PMID 27741242, Free PMC Article
  3. Identification of potential target genes for RFX4_v3, a transcription factor critical for brain development. Zhang D, et al. J Neurochem, 2006 Aug. PMID 16893423
  4. Calsyntenins function as synaptogenic adhesion molecules in concert with neurexins. Um JW, et al. Cell Rep, 2014 Mar 27. PMID 24613359, Free PMC Article
  5. Molecular architecture of the developing mouse brain. La Manno G, et al. Nature, 2021 Aug. PMID 34321664

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Reduced expression of Tpm3, sarcomere genes and Lrtm1 in the diaphragm of mice with diaphragmatic defects.
    Title: Examination of FGFRL1 as a candidate gene for diaphragmatic defects at chromosome 4p16.3 shows that Fgfrl1 null mice have reduced expression of Tpm3, sarcomere genes and Lrtm1 in the diaphragm.
Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (2) 

General gene information

Go to the top of the page Help

Homology

Clone Names

  • MGC118429

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

Go to the top of the page Help
Preferred Names
leucine-rich repeat and transmembrane domain-containing protein 1

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_176920.4 → NP_795894.1  leucine-rich repeat and transmembrane domain-containing protein 1 precursor

    See identical proteins and their annotated locations for NP_795894.1

    Status: VALIDATED

    Source sequence(s)
    AA244770, AC115760, AK052894, BC099587
    Consensus CDS
    CCDS26889.1
    UniProtKB/Swiss-Prot
    Q8BXQ3
    UniProtKB/TrEMBL
    A0A286YE57, A6H6T2
    Related
    ENSMUSP00000061828.3, ENSMUST00000055662.4
    Conserved Domains (6) summary
    smart00013
    Location:33 → 62
    LRRNT; Leucine rich repeat N-terminal domain
    sd00031
    Location:64 → 111
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:45 → 63
    LRR_RI; leucine-rich repeat [structural motif]
    pfam12799
    Location:110 → 151
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:110 → 170
    LRR_8; Leucine rich repeat
    cl15307
    Location:192 → 239
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

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_000080.7 Reference GRCm39 C57BL/6J

    Range
    28740165..28755599
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8BXQ3.1 GenPept UniProtKB/Swiss-Prot:Q8BXQ3

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials
Tools