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LRRN4 leucine rich repeat neuronal 4 [ Homo sapiens (human) ]

Gene ID: 164312, updated on 2-Nov-2024

Summary

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Official Symbol
LRRN4provided by HGNC
Official Full Name
leucine rich repeat neuronal 4provided by HGNC
Primary source
HGNC:HGNC:16208
See related
Ensembl:ENSG00000125872 MIM:619706; AllianceGenome:HGNC:16208
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
NLRR4; NLRR-4; C20orf75; dJ1056H1.1
Summary
Predicted to be involved in long-term memory. Predicted to act upstream of or within visual learning. Located in extracellular exosome. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in lung (RPKM 6.4) and kidney (RPKM 1.0) See more
Orthologs
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Genomic context

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See LRRN4 in Genome Data Viewer
Location:
20p12.3
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (6040546..6054060, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (6080866..6094379, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (6021192..6034706, complement)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene MCM8 antisense RNA 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:5986511-5987012 Neighboring gene RNA, 7SL, cytoplasmic 498, pseudogene Neighboring gene Sharpr-MPRA regulatory region 14083 Neighboring gene cardiolipin synthase 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:6033043-6033844 Neighboring gene uncharacterized LOC124904865 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12662 Neighboring gene FERM domain containing kindlin 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12663

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

Bibliography

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Related articles in PubMed

  1. LRRN4 and UPK3B are markers of primary mesothelial cells. Kanamori-Katayama M, et al. PLoS One, 2011. PMID 21984916, Free PMC Article
  2. Neuronal leucine-rich repeat protein 4 functions in hippocampus-dependent long-lasting memory. Bando T, et al. Mol Cell Biol, 2005 May. PMID 15870286, Free PMC Article
  3. Loci at chromosomes 13, 19 and 20 influence age at natural menopause. Stolk L, et al. Nat Genet, 2009 Jun. PMID 19448619, Free PMC Article
  4. RNF208, an estrogen-inducible E3 ligase, targets soluble Vimentin to suppress metastasis in triple-negative breast cancers. Pang K, et al. Nat Commun, 2019 Dec 20. PMID 31862882, Free PMC Article
  5. The DNA sequence and comparative analysis of human chromosome 20. Deloukas P, et al. Nature, 2001 Dec 20-27. PMID 11780052

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Loci at chromosomes 13, 19 and 20 influence age at natural menopause.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Clone Names

  • FLJ23994, MGC25027

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in long-term memory IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in visual learning IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in extracellular exosome HDA PubMed 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
leucine-rich repeat neuronal protein 4
Names
neuronal leucine-rich repeat protein 4

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_152611.5 → NP_689824.2  leucine-rich repeat neuronal protein 4 precursor

    See identical proteins and their annotated locations for NP_689824.2

    Status: VALIDATED

    Source sequence(s)
    AA464555, AK290123, BC027720, BP252017
    Consensus CDS
    CCDS13097.1
    UniProtKB/Swiss-Prot
    A8K258, Q5JWV6, Q8WUT4, Q9H419
    Related
    ENSP00000368135.4, ENST00000378858.5
    Conserved Domains (6) summary
    PHA03255
    Location:313 → 491
    PHA03255; BDLF3; Provisional
    COG4886
    Location:224 → 311
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    cd00063
    Location:580 → 676
    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 ...
    cd00116
    Location:69 → 213
    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:77 → 100
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:123 → 178
    LRR_8; Leucine rich repeat

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_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    6040546..6054060 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    6080866..6094379 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8WUT4.3 GenPept UniProtKB/Swiss-Prot:Q8WUT4

Gene LinkOut

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

Chemical Information
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