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LRRC4 leucine rich repeat containing 4 [ Homo sapiens (human) ]

Gene ID: 64101, updated on 17-Sep-2024

Summary

Official Symbol
LRRC4provided by HGNC
Official Full Name
leucine rich repeat containing 4provided by HGNC
Primary source
HGNC:HGNC:15586
See related
Ensembl:ENSG00000128594 MIM:610486; AllianceGenome:HGNC:15586
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
NAG14; NGL-2
Summary
Predicted to be involved in modulation of chemical synaptic transmission and synapse organization. Predicted to act upstream of or within synapse organization. Predicted to be located in neuron spine and postsynaptic membrane. Predicted to be active in Schaffer collateral - CA1 synapse; glutamatergic synapse; and plasma membrane. Predicted to be integral component of postsynaptic density membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in brain (RPKM 14.4), adrenal (RPKM 3.2) and 12 other tissues See more
Orthologs
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Genomic context

See LRRC4 in Genome Data Viewer
Location:
7q32.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (128027071..128032128, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (129338751..129343964, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (127667124..127671490, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene staphylococcal nuclease and tudor domain containing 1 Neighboring gene CD2 cytoplasmic tail binding protein 2 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18596 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr7:127540623-127541156 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26590 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:127583497-127583998 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:127583999-127584498 Neighboring gene MPRA-validated peak6714 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26592 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26593 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:127658625-127659175 Neighboring gene SND1 intronic transcript 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18597 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18598 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18599 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18600 Neighboring gene uncharacterized LOC124901743 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:127706407-127706907 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:127716659-127717160 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:127717161-127717660 Neighboring gene microRNA 593

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC133342, MGC133343

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 excitatory synapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in modulation of chemical synaptic transmission IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in postsynaptic density protein 95 clustering IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in synaptic membrane adhesion IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in Schaffer collateral - CA1 synapse IEA
Inferred from Electronic Annotation
more info
 
located_in dendritic spine IEA
Inferred from Electronic Annotation
more info
 
located_in excitatory synapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
is_active_in postsynaptic density membrane IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
leucine-rich repeat-containing protein 4
Names
brain tumor associated protein LRRC4
brain tumor-associated protein BAG
nasopharyngeal carcinoma-associated gene 14 protein
netrin-G ligand-2
netrin-G2 ligand

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_022143.5NP_071426.1  leucine-rich repeat-containing protein 4 precursor

    See identical proteins and their annotated locations for NP_071426.1

    Status: VALIDATED

    Source sequence(s)
    AC008039, AF196976, BC111745, BU682120
    Consensus CDS
    CCDS5799.1
    UniProtKB/Swiss-Prot
    A4D0Y9, Q14DU9, Q6ZMI8, Q96A85, Q9HBW1
    Related
    ENSP00000249363.3, ENST00000249363.4
    Conserved Domains (5) summary
    smart00013
    Location:4679
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:300351
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:359441
    IG; Immunoglobulin
    COG4886
    Location:74291
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:77100
    LRR_RI; leucine-rich repeat [structural motif]

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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    128027071..128032128 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011516461.4XP_011514763.1  leucine-rich repeat-containing protein 4 isoform X1

    See identical proteins and their annotated locations for XP_011514763.1

    UniProtKB/Swiss-Prot
    A4D0Y9, Q14DU9, Q6ZMI8, Q96A85, Q9HBW1
    Conserved Domains (5) summary
    smart00013
    Location:4679
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:300351
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:359441
    IG; Immunoglobulin
    COG4886
    Location:74291
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:77100
    LRR_RI; leucine-rich repeat [structural motif]
  2. XM_047420695.1XP_047276651.1  leucine-rich repeat-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A4D0Y9, Q14DU9, Q6ZMI8, Q96A85, Q9HBW1

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    129338751..129343964 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054358784.1XP_054214759.1  leucine-rich repeat-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A4D0Y9, Q14DU9, Q6ZMI8, Q96A85, Q9HBW1
  2. XM_054358783.1XP_054214758.1  leucine-rich repeat-containing protein 4 isoform X1

    UniProtKB/Swiss-Prot
    A4D0Y9, Q14DU9, Q6ZMI8, Q96A85, Q9HBW1