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    Lrfn2 leucine rich repeat and fibronectin type III domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 316205, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Lrfn2provided by RGD
    Official Full Name
    leucine rich repeat and fibronectin type III domain containing 2provided by RGD
    Primary source
    RGD:1311831
    See related
    AllianceGenome:RGD:1311831
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Salm1
    Summary
    Predicted to be involved in modulation of chemical synaptic transmission and regulation of postsynapse organization. Is active in postsynaptic density membrane. Orthologous to human LRFN2 (leucine rich repeat and fibronectin type III domain containing 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 21.2) and Thymus (RPKM 15.4) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lrfn2 in Genome Data Viewer
    Location:
    9q12
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (19395099..19563849, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (11897425..12066177, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (13845756..14015360, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene Kin17 DNA and RNA binding protein, pseudogene 1 Neighboring gene uncharacterized LOC102547352 Neighboring gene uncharacterized LOC134480337 Neighboring gene uncharacterized LOC134480338 Neighboring gene uncharacterized LOC102547709

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    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. Autism-like behaviours and enhanced memory formation and synaptic plasticity in Lrfn2/SALM1-deficient mice. Morimura N, et al. Nat Commun, 2017 Jun 12. PMID 28604739, Free PMC Article
    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. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in modulation of chemical synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in modulation of chemical synaptic transmission ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of postsynapse organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of postsynapse organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Schaffer collateral - CA1 synapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in Schaffer collateral - CA1 synapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in postsynapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in postsynapse ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic density membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic density membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in postsynaptic density membrane IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in presynapse IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in presynapse 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 2
    Names
    synaptic adhesion-like 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_001039699.1 → NP_001034788.1  leucine-rich repeat and fibronectin type-III domain-containing protein 2 precursor

      See identical proteins and their annotated locations for NP_001034788.1

      Status: VALIDATED

      Source sequence(s)
      BE101923, JAXUCZ010000009
      UniProtKB/Swiss-Prot
      Q460M5
      UniProtKB/TrEMBL
      A6JID6, G3V7J3
      Conserved Domains (7) summary
      smart00082
      Location:242 → 286
      LRRCT; Leucine rich repeat C-terminal domain
      smart00410
      Location:298 → 376
      IG_like; Immunoglobulin like
      cd00116
      Location:27 → 209
      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:54 → 77
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00041
      Location:428 → 493
      fn3; Fibronectin type III domain
      pfam13855
      Location:76 → 136
      LRR_8; Leucine rich repeat
      cl11960
      Location:303 → 376
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      19395099..19563849 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017596406.3 → XP_017451895.1  leucine-rich repeat and fibronectin type-III domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      Q460M5
      UniProtKB/TrEMBL
      A6JID6, G3V7J3
      Conserved Domains (7) summary
      smart00082
      Location:242 → 286
      LRRCT; Leucine rich repeat C-terminal domain
      smart00410
      Location:298 → 376
      IG_like; Immunoglobulin like
      cd00116
      Location:27 → 209
      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:54 → 77
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00041
      Location:428 → 493
      fn3; Fibronectin type III domain
      pfam13855
      Location:76 → 136
      LRR_8; Leucine rich repeat
      cl11960
      Location:303 → 376
      Ig; Immunoglobulin domain

    2. XM_017596405.3 → XP_017451894.1  leucine-rich repeat and fibronectin type-III domain-containing protein 2 isoform X1

      UniProtKB/Swiss-Prot
      Q460M5
      UniProtKB/TrEMBL
      A6JID6, G3V7J3
      Conserved Domains (7) summary
      smart00082
      Location:242 → 286
      LRRCT; Leucine rich repeat C-terminal domain
      smart00410
      Location:298 → 376
      IG_like; Immunoglobulin like
      cd00116
      Location:27 → 209
      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:54 → 77
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00041
      Location:428 → 493
      fn3; Fibronectin type III domain
      pfam13855
      Location:76 → 136
      LRR_8; Leucine rich repeat
      cl11960
      Location:303 → 376
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q460M5.1 GenPept UniProtKB/Swiss-Prot:Q460M5

    Gene LinkOut

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

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