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LRFN1 leucine rich repeat and fibronectin type III domain containing 1 [ Homo sapiens (human) ]

Gene ID: 57622, updated on 1-Aug-2020

Summary

Official Symbol
LRFN1provided by HGNC
Official Full Name
leucine rich repeat and fibronectin type III domain containing 1provided by HGNC
Primary source
HGNC:HGNC:29290
See related
Ensembl:ENSG00000128011 MIM:612807
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SALM2
Expression
Broad expression in brain (RPKM 2.1), spleen (RPKM 1.1) and 18 other tissues See more
Orthologs

Genomic context

See LRFN1 in Genome Data Viewer
Location:
19q13.2
Exon count:
6
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 19 NC_000019.10 (39306566..39320863, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (39797457..39806740, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene interferon lambda 2 Neighboring gene interferon lambda 1 Neighboring gene glia maturation factor gamma Neighboring gene sterile alpha motif domain containing 4B Neighboring gene RNA, 7SL, cytoplasmic 566, pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of LRFN1 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA1484

Gene Ontology Provided by GOA

Process Evidence Code Pubs
regulation of postsynaptic density assembly IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integral component of postsynaptic density membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
leucine-rich repeat and fibronectin type III domain-containing protein 1
Names
CTC-246B18.8
synaptic adhesion-like molecule 2

NCBI Reference Sequences (RefSeq)

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_020862.2NP_065913.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 precursor

    See identical proteins and their annotated locations for NP_065913.1

    Status: VALIDATED

    Source sequence(s)
    AC011445
    Consensus CDS
    CCDS46071.1
    UniProtKB/Swiss-Prot
    Q9P244
    Related
    ENSP00000248668.4, ENST00000248668.4
    Conserved Domains (8) summary
    smart00082
    Location:252284
    LRRCT; Leucine rich repeat C-terminal domain
    smart00410
    Location:310385
    IG_like; Immunoglobulin like
    cd00116
    Location:65174
    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:6790
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426500
    fn3; Fibronectin type III domain
    pfam12799
    Location:165203
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:65125
    LRR_8; Leucine rich repeat
    cl11960
    Location:314387
    Ig; Immunoglobulin domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109.20200522

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p13 Primary Assembly

    Range
    39306566..39320863 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017027033.1XP_016882522.1  leucine-rich repeat and fibronectin type III domain-containing protein 1 isoform X1

    UniProtKB/Swiss-Prot
    Q9P244
    Conserved Domains (8) summary
    smart00082
    Location:252284
    LRRCT; Leucine rich repeat C-terminal domain
    smart00410
    Location:310385
    IG_like; Immunoglobulin like
    cd00116
    Location:65174
    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:6790
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:426500
    fn3; Fibronectin type III domain
    pfam12799
    Location:165203
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:65125
    LRR_8; Leucine rich repeat
    cl11960
    Location:314387
    Ig; Immunoglobulin domain
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