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

Summary

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, Dec 2024]
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

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_000073.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

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 page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.

Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

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

Endonuclease-mediated (1)

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

Lrfn1 (e-PCR), detects polymorphism
- UniSTS:525545

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	IEA Inferred from Electronic Annotation more info
involved_in regulation of postsynaptic density assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell surface	IDA Inferred from Direct Assay 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

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)

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
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
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
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
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

Related

ENSMUSP00000139609.2, ENSMUST00000189877.7
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

ENSMUSP00000057645.10, ENSMUST00000055110.11

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

NC_000073.7 Reference GRCm39 C57BL/6J

Range

28151194..28167667

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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