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Lrrc4c leucine rich repeat containing 4C [ Mus musculus (house mouse) ]

Gene ID: 241568, updated on 9-May-2024

Summary

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Official Symbol
Lrrc4cprovided by MGI
Official Full Name
leucine rich repeat containing 4Cprovided by MGI
Primary source
MGI:MGI:2442636
See related
Ensembl:ENSMUSG00000050587 AllianceGenome:MGI:2442636
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
NGL-1; 6430556C10Rik
Summary
Predicted to enable cell-cell adhesion mediator activity. Involved in modulation of chemical synaptic transmission and synaptic membrane adhesion. Located in Schaffer collateral - CA1 synapse. Is active in glutamatergic synapse. Is integral component of postsynaptic density membrane. Is expressed in central nervous system and eye. Orthologous to human LRRC4C (leucine rich repeat containing 4C). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in cortex adult (RPKM 4.7), frontal lobe adult (RPKM 3.8) and 8 other tissues See more
Orthologs
human all
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Genomic context

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See Lrrc4c in Genome Data Viewer
Location:
2 E1; 2 52.3 cM
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (96148514..97466871)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (96318169..97631672)

Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_05189 Neighboring gene AXL receptor tyrosine kinase pseudogene Neighboring gene predicted gene 13799 Neighboring gene STARR-seq mESC enhancer starr_05191 Neighboring gene STARR-seq mESC enhancer starr_05192 Neighboring gene STARR-seq mESC enhancer starr_05193 Neighboring gene STARR-seq mESC enhancer starr_05194 Neighboring gene STARR-seq mESC enhancer starr_05196 Neighboring gene sorting nexin 25 pseudogene Neighboring gene ribosomal RNA processing 8, methyltransferase, homolog pseudogene Neighboring gene predicted gene, 22313 Neighboring gene predicted gene, 54117 Neighboring gene STARR-seq mESC enhancer starr_05199 Neighboring gene STARR-seq mESC enhancer starr_05200 Neighboring gene STARR-seq mESC enhancer starr_05202 Neighboring gene STARR-seq mESC enhancer starr_05203 Neighboring gene corepressor interacting with RBPJ, 1 pseudogene Neighboring gene STARR-seq mESC enhancer starr_05204 Neighboring gene 60S ribosomal protein L27a-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. NGL-1/LRRC4C Deletion Moderately Suppresses Hippocampal Excitatory Synapse Development and Function in an Input-Independent Manner. Choi Y, et al. Front Mol Neurosci, 2019. PMID 31156385, Free PMC Article
  2. Editorial: Allan Guttmacher, M.D.--a life fulfilled. Sturgis SH. N Engl J Med, 1974 May 9. PMID 4595443
  3. NGL-3 in the regulation of brain development, Akt/GSK3b signaling, long-term depression, and locomotive and cognitive behaviors. Lee H, et al. PLoS Biol, 2019 Jun. PMID 31166939, Free PMC Article
  4. The maternal microbiome modulates fetal neurodevelopment in mice. Vuong HE, et al. Nature, 2020 Oct. PMID 32968276, Free PMC Article
  5. Netrin-G1 Regulates Microglial Accumulation along Axons and Supports the Survival of Layer V Neurons in the Postnatal Mouse Brain. Fujita Y, et al. Cell Rep, 2020 Apr 28. PMID 32348754

See all (30) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2)  1 citation

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • KIAA1580

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables cell adhesion molecule binding ISO
Inferred from Sequence Orthology
more info
  
enables cell-cell adhesion mediator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables cell-cell adhesion mediator activity ISO
Inferred from Sequence Orthology
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in modulation of chemical synaptic transmission IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in modulation of chemical synaptic transmission IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in modulation of chemical synaptic transmission IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of axonogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of axonogenesis ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
involved_in synaptic membrane adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptic membrane adhesion IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in synaptic membrane adhesion IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in synaptic membrane adhesion IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in synaptic membrane adhesion ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in Schaffer collateral - CA1 synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in glutamatergic synapse IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in glutamatergic synapse IEP
Inferred from Expression Pattern
more info
 PubMed 
is_active_in glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
 PubMed 
located_in membrane ISO
Inferred from Sequence Orthology
more info
  
located_in membrane ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
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
  
is_active_in postsynaptic density membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in postsynaptic membrane IEA
Inferred from Electronic Annotation
more info
  
located_in synapse IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
leucine-rich repeat-containing protein 4C
Names
netrin-G1 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_001289742.1 → NP_001276671.1  leucine-rich repeat-containing protein 4C precursor

    See identical proteins and their annotated locations for NP_001276671.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) differs in the 5' UTR compared to variant 5. All seven variants encode the same protein.
    Source sequence(s)
    AK034276, AK048322, AV345568, BY626397
    Consensus CDS
    CCDS16460.1
    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Related
    ENSMUSP00000125218.3, ENSMUST00000162807.9
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  2. NM_001289743.1 → NP_001276672.1  leucine-rich repeat-containing protein 4C precursor

    See identical proteins and their annotated locations for NP_001276672.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 5. All seven variants encode the same protein.
    Source sequence(s)
    AK034276, AV345568
    Consensus CDS
    CCDS16460.1
    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Related
    ENSMUSP00000130984.2, ENSMUST00000135431.8
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  3. NM_001289744.1 → NP_001276673.1  leucine-rich repeat-containing protein 4C precursor

    See identical proteins and their annotated locations for NP_001276673.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 5. All seven variants encode the same protein.
    Source sequence(s)
    AK032467, AK034276, AV345568, BC094588, BY286924
    Consensus CDS
    CCDS16460.1
    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  4. NM_001363047.1 → NP_001349976.1  leucine-rich repeat-containing protein 4C precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) represents the longest transcript. All seven variants encode the same protein.
    Source sequence(s)
    AL672273, AL672307, AL732507, AL844145, AL845319, BX813336
    Consensus CDS
    CCDS16460.1
    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  5. NM_001363048.1 → NP_001349977.1  leucine-rich repeat-containing protein 4C precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) differs in the 5' UTR compared to variant 5. All seven variants encode the same protein.
    Source sequence(s)
    AL672273, AL672307, AL732507, AL844145, AL845319, BX813336
    Consensus CDS
    CCDS16460.1
    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  6. NM_001363049.1 → NP_001349978.1  leucine-rich repeat-containing protein 4C precursor

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR compared to variant 5. All seven variants encode the same protein.
    Source sequence(s)
    AL844145, BX813336
    Consensus CDS
    CCDS16460.1
    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  7. NM_178725.6 → NP_848840.3  leucine-rich repeat-containing protein 4C precursor

    See identical proteins and their annotated locations for NP_848840.3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 5. All seven variants encode the same protein.
    Source sequence(s)
    AK032467, AV345568, BC094588, BY626397
    Consensus CDS
    CCDS16460.1
    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Related
    ENSMUSP00000131795.2, ENSMUST00000059049.8
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

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

  1. NC_000068.8 Reference GRCm39 C57BL/6J

    Range
    96148514..97466871
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036161910.1 → XP_036017803.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42

  2. XM_036161912.1 → XP_036017805.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/Swiss-Prot
    Q505E5, Q8BGH8, Q8C031
    Conserved Domains (6) summary
    smart00013
    Location:47 → 80
    LRRNT; Leucine rich repeat N-terminal domain
    smart00082
    Location:301 → 339
    LRRCT; Leucine rich repeat C-terminal domain
    smart00409
    Location:360 → 443
    IG; Immunoglobulin
    sd00033
    Location:78 → 101
    LRR_RI; leucine-rich repeat [structural motif]
    pfam13855
    Location:220 → 279
    LRR_8; Leucine rich repeat
    cd21340
    Location:65 → 235
    PPP1R42; protein phosphatase 1 regulatory subunit 42
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8C031.2 GenPept UniProtKB/Swiss-Prot:Q8C031

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