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    LRFN3 leucine rich repeat and fibronectin type III domain containing 3 [ Homo sapiens (human) ]

    Gene ID: 79414, updated on 9-Dec-2024

    Summary

    Official Symbol
    LRFN3provided by HGNC
    Official Full Name
    leucine rich repeat and fibronectin type III domain containing 3provided by HGNC
    Primary source
    HGNC:HGNC:28370
    See related
    Ensembl:ENSG00000126243 MIM:612809; AllianceGenome:HGNC:28370
    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
    SALM4; FIGLER1
    Summary
    Predicted to be involved in regulation of presynapse assembly; regulation of synaptic membrane adhesion; and synaptic membrane adhesion. Predicted to be located in plasma membrane. Predicted to be active in cell surface; glutamatergic synapse; and synaptic membrane. [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in brain (RPKM 3.2), fat (RPKM 3.1) and 24 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See LRFN3 in Genome Data Viewer
    Location:
    19q13.12
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (35936374..35946624)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (38482159..38492409)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (36427276..36437526)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr19:36398209-36398362 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14505 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14506 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14507 Neighboring gene transmembrane immune signaling adaptor TYROBP Neighboring gene hematopoietic cell signal transducer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14508 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14509 Neighboring gene uncharacterized LOC105372383 Neighboring gene Sharpr-MPRA regulatory region 3529 Neighboring gene Sharpr-MPRA regulatory region 1826 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10543 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10544 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14510 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:36453209-36453373 Neighboring gene MPRA-validated peak3453 silencer Neighboring gene MPRA-validated peak3454 silencer Neighboring gene MPRA-validated peak3455 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14511 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:36485053-36485552 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14512 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14513 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10545 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10546 Neighboring gene succinate dehydrogenase complex assembly factor 1

    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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Clone Names

    • MGC2656

    Gene Ontology Provided by GOA

    Process Evidence Code Pubs
    involved_in regulation of presynapse assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of synaptic membrane adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in synaptic membrane adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in axon IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    located_in postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in presynaptic active zone membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    leucine-rich repeat and fibronectin type-III domain-containing protein 3
    Names
    fibronectin type III, immunoglobulin and leucine rich repeat domains 1
    synaptic adhesion-like molecule 4

    NCBI Reference Sequences (RefSeq)

    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_024509.2NP_078785.1  leucine-rich repeat and fibronectin type-III domain-containing protein 3 precursor

      See identical proteins and their annotated locations for NP_078785.1

      Status: VALIDATED

      Source sequence(s)
      AF038458, BC003578
      Consensus CDS
      CCDS12483.1
      UniProtKB/Swiss-Prot
      Q6UY10, Q9BTN0
      Related
      ENSP00000246529.3, ENST00000246529.4
      Conserved Domains (8) summary
      smart00410
      Location:302383
      IG_like; Immunoglobulin like
      cd00116
      Location:63168
      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 ...
      sd00031
      Location:242253
      LRR_1; leucine-rich repeat [structural motif]
      sd00033
      Location:6384
      LRR_RI; leucine-rich repeat [structural motif]
      pfam00041
      Location:424502
      fn3; Fibronectin type III domain
      pfam13855
      Location:59119
      LRR_8; Leucine rich repeat
      cl11960
      Location:310383
      Ig; Immunoglobulin domain
      cl15307
      Location:249281
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

      Range
      35936374..35946624
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060943.1 Alternate T2T-CHM13v2.0

      Range
      38482159..38492409
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)