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Lrfn4 leucine rich repeat and fibronectin type III domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 225875, updated on 2-Nov-2024

Summary

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Official Symbol
Lrfn4provided by MGI
Official Full Name
leucine rich repeat and fibronectin type III domain containing 4provided by MGI
Primary source
MGI:MGI:2385612
See related
Ensembl:ENSMUSG00000045045 AllianceGenome:MGI:2385612
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
Salm3
Summary
Involved in regulation of postsynaptic density assembly; regulation of presynapse assembly; and synaptic membrane adhesion. Located in cell surface. Is active in GABA-ergic synapse and glutamatergic synapse. Is expressed in several structures, including central nervous system; liver; primary head vein; reproductive system; and sensory organ. Orthologous to human LRFN4 (leucine rich repeat and fibronectin type III domain containing 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in ovary adult (RPKM 41.2), colon adult (RPKM 28.0) and 22 other tissues See more
Orthologs
human all
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Genomic context

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See Lrfn4 in Genome Data Viewer
Location:
19 A; 19 4.07 cM
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 19 NC_000085.7 (4661817..4665720, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 19 NC_000085.6 (4611784..4615667, complement)

Chromosome 19 - NC_000085.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A930001C03 gene Neighboring gene synaptotagmin XII Neighboring gene RIKEN cDNA 2010003K11 gene Neighboring gene STARR-positive B cell enhancer ABC_E778 Neighboring gene pyruvate carboxylase Neighboring gene STARR-seq mESC enhancer starr_45350 Neighboring gene microRNA 6986 Neighboring gene TOP6B like initiator of meiotic double strand breaks Neighboring gene Ras converting CAAX endopeptidase 1

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 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. Structural basis of SALM3 dimerization and synaptic adhesion complex formation with PTPσ. Karki S, et al. Sci Rep, 2020 Jul 14. PMID 32665594, Free PMC Article
  2. Splicing-Dependent Trans-synaptic SALM3-LAR-RPTP Interactions Regulate Excitatory Synapse Development and Locomotion. Li Y, et al. Cell Rep, 2015 Sep 8. PMID 26321637, Free PMC Article
  3. Synaptic adhesion-like molecules (SALMs) promote neurite outgrowth. Wang PY, et al. Mol Cell Neurosci, 2008 Sep. PMID 18585462, Free PMC Article
  4. miR-15b/16-2 deletion promotes B-cell malignancies. Lovat F, et al. Proc Natl Acad Sci U S A, 2015 Sep 15. PMID 26324892, Free PMC Article
  5. Selected SALM (synaptic adhesion-like molecule) family proteins regulate synapse formation. Mah W, et al. J Neurosci, 2010 Apr 21. PMID 20410109, Free PMC Article

See all (25) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Structural basis of SALM3 dimerization and synaptic adhesion complex formation with PTPsigma.
    Title: Structural basis of SALM3 dimerization and synaptic adhesion complex formation with PTPσ.
  2. SALM4 cis-interacts with SALM3, inhibits trans-synaptic SALM3 interaction with presynaptic LAR family receptor tyrosine phosphatases and suppresses SALM3-dependent presynaptic differentiation.
    Title: SALM4 suppresses excitatory synapse development by cis-inhibiting trans-synaptic SALM3-LAR adhesion.
  3. Data show that the C-terminal PDZ binding domains of synaptic adhesion-like molecules (SALMs)1-3 are required for neurite outgrowth, and that the N-termini of SALMs 2 and 4 are alsoinvolved in neurite outgrowth.
    Title: Synaptic adhesion-like molecules (SALMs) promote neurite outgrowth.
  4. Expression of SALM family proteins SALM3 and SALM5 in nonneural and neural cells induces both excitatory and inhibitory presynaptic differentiation in contacting axons.
    Title: Selected SALM (synaptic adhesion-like molecule) family proteins regulate synapse formation.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC36464, MGC36545

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in regulation of postsynaptic density assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of postsynaptic density assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of postsynaptic density assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of presynapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of presynapse assembly IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of presynapse assembly IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in synaptic membrane adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptic membrane adhesion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in synaptic membrane adhesion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in GABA-ergic synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in GABA-ergic synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
is_active_in cell surface IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cell surface IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
is_active_in postsynaptic density membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in postsynaptic density membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in postsynaptic density membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
leucine-rich repeat and fibronectin type-III domain-containing protein 4
Names
synaptic adhesion-like molecule 3

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_001426059.1 → NP_001412988.1  leucine-rich repeat and fibronectin type-III domain-containing protein 4 precursor

    Status: VALIDATED

    Source sequence(s)
    AC128739
    UniProtKB/Swiss-Prot
    Q3TQG8, Q460G5, Q80XU8, Q8K3C4
    Related
    ENSMUSP00000050039.3, ENSMUST00000053597.3

  2. NM_153388.5 → NP_700437.2  leucine-rich repeat and fibronectin type-III domain-containing protein 4 precursor

    See identical proteins and their annotated locations for NP_700437.2

    Status: VALIDATED

    Source sequence(s)
    AC128739
    Consensus CDS
    CCDS29431.1
    UniProtKB/Swiss-Prot
    Q3TQG8, Q460G5, Q80XU8, Q8K3C4
    Related
    ENSMUSP00000109453.3, ENSMUST00000113822.3
    Conserved Domains (5) summary
    smart00082
    Location:234 → 278
    LRRCT; Leucine rich repeat C-terminal domain
    COG4886
    Location:39 → 205
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:50 → 73
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:409 → 478
    fn3; Fibronectin type III domain
    cl11960
    Location:295 → 368
    Ig; Immunoglobulin 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_000085.7 Reference GRCm39 C57BL/6J

    Range
    4661817..4665720 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q80XU8.1 GenPept UniProtKB/Swiss-Prot:Q80XU8

Gene LinkOut

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

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