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

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 several cellular components, including endoplasmic reticulum; excitatory synapse; and growth cone. Predicted to be active in several cellular components, including GABA-ergic synapse; glutamatergic synapse; and 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, Nov 2024]
Expression: Biased expression in CNS E18 (RPKM 9.8), cortex adult (RPKM 6.8) and 7 other tissues See more
Orthologs: human all
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Genomic context

Location:: 6 C3; 6 33.89 cM

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	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_000072.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Concerted roles of LRRTM1 and SynCAM 1 in organizing prefrontal cortex synapses and cognitive functions.
Title: Concerted roles of LRRTM1 and SynCAM 1 in organizing prefrontal cortex synapses and cognitive functions.
Distinct but overlapping roles of LRRTM1 and LRRTM2 in developing and mature hippocampal circuits.
Title: Distinct but overlapping roles of LRRTM1 and LRRTM2 in developing and mature hippocampal circuits.
Schizophrenia-associated LRRTM1 regulates cognitive behavior through controlling synaptic function in the mediodorsal thalamus.
Title: Schizophrenia-associated LRRTM1 regulates cognitive behavior through controlling synaptic function in the mediodorsal thalamus.
Spinal caspase-3 contributes to tibial fracture-associated postoperative allodynia via up-regulation of LRRTM1 expression in mice.
Title: Spinal caspase-3 contributes to tibial fracture-associated postoperative allodynia via up-regulation of LRRTM1 expression in mice.
LRTM1 promotes the differentiation of myoblast cells by negatively regulating the FGFR1 signaling pathway.
Title: LRTM1 promotes the differentiation of myoblast cells by negatively regulating the FGFR1 signaling pathway.
Using an unbiased transcriptomics approach and targeted mutant mice, the authors discovered a critical role for the synaptic adhesion molecule Leucine Rich Repeat Transmembrane Neuronal 1 (LRRTM1) in the emergence of retinothalamic convergence.
Title: LRRTM1 underlies synaptic convergence in visual thalamus.
Genetic deletion of LRRTM1,2 in vivo in CA1 neurons using Cre recombinase-expressing lentiviruses dramatically impaired long-term potentiation (LTP), an impairment that was rescued by simultaneous expression of LRRTM2, but not LRRTM4.
Title: Deletion of LRRTM1 and LRRTM2 in adult mice impairs basal AMPA receptor transmission and LTP in hippocampal CA1 pyramidal neurons.
Data indicate that neural Cell Adhesion Molecules Lrrtm1 and Lrrtm2 mRNA expression is controlled by synaptic activity and nuclear calcium signaling.
Title: Nuclear calcium signaling induces expression of the synaptic organizers Lrrtm1 and Lrrtm2.
This study demonistrated that LRRTM1 is essential for maintenance of long-term potentiation in mice hippocampus.
Title: Leucine-rich repeat transmembrane proteins are essential for maintenance of long-term potentiation.
LRRTM1-knockout mice exhibit an extraordinary phenotype of avoiding small enclosures.
Title: LRRTM1-deficient mice show a rare phenotype of avoiding small enclosures--a tentative mouse model for claustrophobia-like behaviour.

Submit: New GeneRIF Correction See all GeneRIFs (12)

Variation

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Alleles

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

Endonuclease-mediated (5)
Targeted (4) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by MGI

Process	Evidence Code	Pubs
acts_upstream_of establishment of localization in cell	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within exploration behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within locomotory behavior	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within long-term synaptic potentiation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within negative regulation of receptor internalization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within positive regulation of synapse assembly	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein localization to synapse	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of receptor internalization	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of postsynaptic density assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of postsynaptic density assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of presynapse assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of presynapse assembly	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within synapse organization	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within synapse organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within synapse organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in GABA-ergic synapse	IEA Inferred from Electronic Annotation more info
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	IEA Inferred from Electronic Annotation 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
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in growth cone	IEA Inferred from Electronic Annotation 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
is_active_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic specialization membrane	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic specialization membrane	ISO Inferred from Sequence Orthology more info

General protein information

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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)

NM_001362109.1 → NP_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, Q8K377

Related

ENSMUSP00000124373.2, ENSMUST00000161677.2

Conserved Domains (3) summary

COG4886
Location:75 → 315

LRR; Leucine-rich repeat (LRR) protein [Transcription]

sd00031
Location:306 → 318

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:91 → 114

LRR_RI; leucine-rich repeat [structural motif]
NM_028880.4 → NP_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

Related

ENSMUSP00000125207.2, ENSMUST00000159616.2

Conserved Domains (3) summary

COG4886
Location:75 → 315

LRR; Leucine-rich repeat (LRR) protein [Transcription]

sd00031
Location:306 → 318

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:91 → 114

LRR_RI; leucine-rich repeat [structural motif]

RNA

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
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: 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

NC_000072.7 Reference GRCm39 C57BL/6J

Range

77192762..77236898

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_036152373.1 → XP_036008266.1 leucine-rich repeat transmembrane neuronal protein 1 isoform X1

UniProtKB/Swiss-Prot

Q3UVX1, Q8K377

Conserved Domains (3) summary

COG4886
Location:75 → 315

LRR; Leucine-rich repeat (LRR) protein [Transcription]

sd00031
Location:306 → 318

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:91 → 114

LRR_RI; leucine-rich repeat [structural motif]
XM_030255644.2 → XP_030111504.1 leucine-rich repeat transmembrane neuronal protein 1 isoform X1

UniProtKB/Swiss-Prot

Q3UVX1, Q8K377

Conserved Domains (3) summary

COG4886
Location:75 → 315

LRR; Leucine-rich repeat (LRR) protein [Transcription]

sd00031
Location:306 → 318

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:91 → 114

LRR_RI; leucine-rich repeat [structural motif]
XM_036152372.1 → XP_036008265.1 leucine-rich repeat transmembrane neuronal protein 1 isoform X1

UniProtKB/Swiss-Prot

Q3UVX1, Q8K377

Conserved Domains (3) summary

COG4886
Location:75 → 315

LRR; Leucine-rich repeat (LRR) protein [Transcription]

sd00031
Location:306 → 318

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:91 → 114

LRR_RI; leucine-rich repeat [structural motif]
XM_036152371.1 → XP_036008264.1 leucine-rich repeat transmembrane neuronal protein 1 isoform X1

UniProtKB/Swiss-Prot

Q3UVX1, Q8K377

Conserved Domains (3) summary

COG4886
Location:75 → 315

LRR; Leucine-rich repeat (LRR) protein [Transcription]

sd00031
Location:306 → 318

LRR_1; leucine-rich repeat [structural motif]

sd00033
Location:91 → 114

LRR_RI; leucine-rich repeat [structural motif]