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    Lrfn1 leucine rich repeat and fibronectin type III domain containing 1 [ Mus musculus (house mouse) ]

    Gene ID: 80749, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Lrfn1provided by MGI
    Official Full Name
    leucine rich repeat and fibronectin type III domain containing 1provided by MGI
    Primary source
    MGI:MGI:2136810
    See related
    Ensembl:ENSMUSG00000030600 AllianceGenome:MGI:2136810
    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
    SALM2; Semo1
    Summary
    Predicted to be involved in regulation of postsynaptic density assembly. Located in cell surface. Is expressed in several structures, including branchial arch; central nervous system; dorsal root ganglion; limb; and sensory organ. Orthologous to human LRFN1 (leucine rich repeat and fibronectin type III domain containing 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Broad expression in whole brain E14.5 (RPKM 13.7), CNS E18 (RPKM 12.5) and 19 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    7 A3; 7 16.77 cM
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (28151194..28167667)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (28451893..28468242)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene sterile alpha motif domain containing 4B Neighboring gene STARR-positive B cell enhancer ABC_E240 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:29225831-29226014 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:29231461-29231644 Neighboring gene STARR-seq mESC enhancer starr_18417 Neighboring gene glia maturation factor, gamma Neighboring gene STARR-seq mESC enhancer starr_18419 Neighboring gene predicted gene 6518 Neighboring gene NADH dehydrogenase (ubiquinone) 1 beta subcomplex 8 pseudogene

    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. Synaptic adhesion-like molecules (SALMs) promote neurite outgrowth. Wang PY, et al. Mol Cell Neurosci, 2008 Sep. PMID 18585462, Free PMC Article
    2. The SALM/Lrfn family of leucine-rich repeat-containing cell adhesion molecules. Nam J, et al. Semin Cell Dev Biol, 2011 Jul. PMID 21736948
    3. A novel family of adhesion-like molecules that interacts with the NMDA receptor. Wang CY, et al. J Neurosci, 2006 Feb 22. PMID 16495444, Free PMC Article
    4. Comparative analysis of structure, expression and PSD95-binding capacity of Lrfn, a novel family of neuronal transmembrane proteins. Morimura N, et al. Gene, 2006 Oct 1. PMID 16828986
    5. DSCAM Deficiency Leads to Premature Spine Maturation and Autism-like Behaviors. Chen P, et al. J Neurosci, 2022 Jan 26. PMID 34848499, Free PMC Article

    See all (20) 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)
    • Endonuclease-mediated (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

    • MGC7599

    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    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 
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in postsynaptic density membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in presynaptic active zone membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat and fibronectin type III domain-containing protein 1
    Names
    synaptic adhesion-like molecule 2
    synaptic differentiation enhancing molecule 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_001141921.2 → NP_001135393.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_001135393.1

      Status: VALIDATED

      Source sequence(s)
      AC149606
      Consensus CDS
      CCDS52163.1
      UniProtKB/Swiss-Prot
      Q2WF71, Q460M4, Q8C1V9, Q99KT6
      Conserved Domains (6) summary
      smart00082
      Location:252 → 284
      LRRCT; Leucine rich repeat C-terminal domain
      cd00063
      Location:426 → 500
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      sd00033
      Location:67 → 90
      LRR_RI; leucine-rich repeat [structural motif]
      cd00096
      Location:299 → 302
      Ig; Ig strand A [structural motif]
      cd21340
      Location:70 → 226
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl11960
      Location:299 → 387
      Ig; Immunoglobulin domain

    2. NM_001420202.1 → NP_001407131.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC149606
      UniProtKB/Swiss-Prot
      Q2WF71, Q460M4, Q8C1V9, Q99KT6

    3. NM_001420203.1 → NP_001407132.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC149606
      UniProtKB/Swiss-Prot
      Q2WF71, Q460M4, Q8C1V9, Q99KT6

    4. NM_001420204.1 → NP_001407133.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform 1 precursor

      Status: VALIDATED

      Source sequence(s)
      AC149606
      UniProtKB/Swiss-Prot
      Q2WF71, Q460M4, Q8C1V9, Q99KT6

    5. NM_001420205.1 → NP_001407134.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform 2 precursor

      Status: VALIDATED

      Source sequence(s)
      AC149606

    6. NM_030562.3 → NP_085039.2  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform 2 precursor

      See identical proteins and their annotated locations for NP_085039.2

      Status: VALIDATED

      Source sequence(s)
      AC149606
      Consensus CDS
      CCDS21045.1
      UniProtKB/Swiss-Prot
      Q2WF71
      Related
      ENSMUSP00000139609.2, ENSMUST00000189877.7
      Conserved Domains (7) summary
      smart00082
      Location:252 → 284
      LRRCT; Leucine rich repeat C-terminal domain
      smart00410
      Location:310 → 385
      IG_like; Immunoglobulin like
      cd00116
      Location:65 → 174
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      sd00033
      Location:67 → 90
      LRR_RI; leucine-rich repeat [structural motif]
      pfam12799
      Location:165 → 203
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:65 → 125
      LRR_8; Leucine rich repeat
      cl11960
      Location:314 → 387
      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_000073.7 Reference GRCm39 C57BL/6J

      Range
      28151194..28167667
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036153592.1 → XP_036009485.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform X1

      UniProtKB/Swiss-Prot
      Q2WF71, Q460M4, Q8C1V9, Q99KT6
      Conserved Domains (6) summary
      smart00082
      Location:252 → 284
      LRRCT; Leucine rich repeat C-terminal domain
      cd00063
      Location:426 → 500
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      sd00033
      Location:67 → 90
      LRR_RI; leucine-rich repeat [structural motif]
      cd00096
      Location:299 → 302
      Ig; Ig strand A [structural motif]
      cd21340
      Location:70 → 226
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl11960
      Location:299 → 387
      Ig; Immunoglobulin domain

    2. XM_036153594.1 → XP_036009487.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform X1

      UniProtKB/Swiss-Prot
      Q2WF71, Q460M4, Q8C1V9, Q99KT6
      Related
      ENSMUSP00000103923.4, ENSMUST00000108288.9
      Conserved Domains (6) summary
      smart00082
      Location:252 → 284
      LRRCT; Leucine rich repeat C-terminal domain
      cd00063
      Location:426 → 500
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
      sd00033
      Location:67 → 90
      LRR_RI; leucine-rich repeat [structural motif]
      cd00096
      Location:299 → 302
      Ig; Ig strand A [structural motif]
      cd21340
      Location:70 → 226
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl11960
      Location:299 → 387
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q2WF71.1 GenPept UniProtKB/Swiss-Prot:Q2WF71

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