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

Gene ID: 74342, updated on 4-Feb-2023

Summary

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
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Genomic context

See Lrrtm1 in Genome Data Viewer
Location:
6; 6 C3
Exon count:
5
Annotation release Status Assembly Chr Location
109 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 predicted gene, 38836 Neighboring gene predicted gene, 31860 Neighboring gene catenin (cadherin associated protein), alpha 2 Neighboring gene RIKEN cDNA 6330415B21 gene Neighboring gene predicted gene, 38837

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

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
PubMed 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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

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_001362109.1NP_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
    UniProtKB/TrEMBL
    A0A8C6GN98
    Related
    ENSMUSP00000124373.2, ENSMUST00000161677.2
    Conserved Domains (3) summary
    COG4886
    Location:75315
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00031
    Location:306318
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:91114
    LRR_RI; leucine-rich repeat [structural motif]
  2. NM_028880.4NP_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
    UniProtKB/TrEMBL
    A0A8C6GN98
    Related
    ENSMUSP00000125207.2, ENSMUST00000159616.2
    Conserved Domains (3) summary
    COG4886
    Location:75315
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00031
    Location:306318
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:91114
    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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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_036152373.1XP_036008266.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1
    UniProtKB/TrEMBL
    A0A8C6GN98
    Conserved Domains (3) summary
    COG4886
    Location:75315
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00031
    Location:306318
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:91114
    LRR_RI; leucine-rich repeat [structural motif]
  2. XM_030255644.2XP_030111504.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1
    UniProtKB/TrEMBL
    A0A8C6GN98
    Conserved Domains (3) summary
    COG4886
    Location:75315
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00031
    Location:306318
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:91114
    LRR_RI; leucine-rich repeat [structural motif]
  3. XM_036152372.1XP_036008265.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1
    UniProtKB/TrEMBL
    A0A8C6GN98
    Conserved Domains (3) summary
    COG4886
    Location:75315
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00031
    Location:306318
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:91114
    LRR_RI; leucine-rich repeat [structural motif]
  4. XM_036152371.1XP_036008264.1  leucine-rich repeat transmembrane neuronal protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q3UVX1
    UniProtKB/TrEMBL
    A0A8C6GN98
    Conserved Domains (3) summary
    COG4886
    Location:75315
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00031
    Location:306318
    LRR_1; leucine-rich repeat [structural motif]
    sd00033
    Location:91114
    LRR_RI; leucine-rich repeat [structural motif]