U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

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

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

Summary

Go to the top of the page Help
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
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See Lrfn1 in Genome Data Viewer
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

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

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

Go to the top of the page Help

Alleles

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

Pathways from PubChem

Go to the top of the page

Interactions

Go to the top of the page Help
Products Interactant Other Gene Complex Source Pubs Description

General gene information

Go to the top of the page Help

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

Go to the top of the page Help
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)

Go to the top of the page Help

NEW Try the new Transcript table

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

Gene LinkOut

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

Chemical Information
Molecular Biology Databases
Research Materials
Tools
Miscellaneous