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Lrrc4c leucine rich repeat containing 4C [ Rattus norvegicus (Norway rat) ]

Gene ID: 311236, updated on 27-Nov-2024

Summary

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Official Symbol
Lrrc4cprovided by RGD
Official Full Name
leucine rich repeat containing 4Cprovided by RGD
Primary source
RGD:1311013
See related
EnsemblRapid:ENSRNOG00000029798 AllianceGenome:RGD:1311013
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1311013
Summary
Predicted to enable cell-cell adhesion mediator activity. Predicted to be involved in modulation of chemical synaptic transmission; regulation of axonogenesis; and synaptic membrane adhesion. Predicted to be located in membrane. Predicted to be active in Schaffer collateral - CA1 synapse; glutamatergic synapse; and postsynaptic density membrane. Orthologous to human LRRC4C (leucine rich repeat containing 4C). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Brain (RPKM 161.8), Adrenal (RPKM 11.0) and 1 other tissue See more
Orthologs
human mouse all
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Genomic context

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See Lrrc4c in Genome Data Viewer
Location:
3q31
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (102760152..104139222)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (82305495..83684039)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (85421169..86821783)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene large ribosomal subunit protein eL8-like Neighboring gene ribosomal protein L38 like 2 Neighboring gene uncharacterized LOC134486409 Neighboring gene uncharacterized LOC134486410 Neighboring gene VPS26 endosomal protein sorting factor C, pseudogene 1 Neighboring gene ribosomal RNA processing 8, pseudogene 1 Neighboring gene HIG1 domain family member 1A, mitochondrial-like Neighboring gene similar to human chromosome 9 open reading frame 85, pseudogene 1 Neighboring gene U7 small nuclear RNA

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Novel cerebellum-enriched miR-592 may play a role in neural progenitor cell differentiation and neuronal maturation through regulating Lrrc4c and Nfasc in rat. Zhang J, et al. Curr Mol Med, 2013 Nov. PMID 23971736
  2. Trans-induced cis interaction in the tripartite NGL-1, netrin-G1 and LAR adhesion complex promotes development of excitatory synapses. Song YS, et al. J Cell Sci, 2013 Nov 1. PMID 23986473
  3. The netrin-G1 ligand NGL-1 promotes the outgrowth of thalamocortical axons. Lin JC, et al. Nat Neurosci, 2003 Dec. PMID 14595443
  4. Netrin-G/NGL complexes encode functional synaptic diversification. Matsukawa H, et al. J Neurosci, 2014 Nov 19. PMID 25411505, Free PMC Article
  5. Comparison of tear protein levels in breast cancer patients and healthy controls using a de novo proteomic approach. Böhm D, et al. Oncol Rep, 2012 Aug. PMID 22664934, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. miR-592 may play a role in neural progenitor cell differentiation and neuronal maturation through regulating Lrrc4c and Nfasc in rat.
    Title: Novel cerebellum-enriched miR-592 may play a role in neural progenitor cell differentiation and neuronal maturation through regulating Lrrc4c and Nfasc in rat.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

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
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in modulation of chemical synaptic transmission IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in modulation of chemical synaptic transmission ISO
Inferred from Sequence Orthology
more info
  
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 synaptic membrane adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptic membrane adhesion ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in Schaffer collateral - CA1 synapse ISO
Inferred from Sequence Orthology
more info
  
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
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
  
is_active_in postsynaptic density membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
leucine-rich repeat-containing protein 4C

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_001107753.2 → NP_001101223.1  leucine-rich repeat-containing protein 4C precursor

    See identical proteins and their annotated locations for NP_001101223.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    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_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    102760152..104139222
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_063283692.1 → XP_063139762.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  2. XM_063283688.1 → XP_063139758.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  3. XM_063283697.1 → XP_063139767.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  4. XM_063283695.1 → XP_063139765.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  5. XM_039104917.2 → XP_038960845.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    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. XM_063283693.1 → XP_063139763.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  7. XM_063283698.1 → XP_063139768.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  8. XM_063283699.1 → XP_063139769.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  9. XM_063283690.1 → XP_063139760.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  10. XM_063283694.1 → XP_063139764.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  11. XM_063283689.1 → XP_063139759.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  12. XM_063283696.1 → XP_063139766.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  13. XM_063283701.1 → XP_063139771.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  14. XM_063283700.1 → XP_063139770.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  15. XM_063283682.1 → XP_063139752.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  16. XM_063283681.1 → XP_063139751.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  17. XM_063283684.1 → XP_063139754.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  18. XM_063283686.1 → XP_063139756.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  19. XM_063283683.1 → XP_063139753.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  20. XM_063283680.1 → XP_063139750.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  21. XM_063283702.1 → XP_063139772.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1

  22. XM_017591724.3 → XP_017447213.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    Related
    ENSRNOP00000044234.3, ENSRNOT00000044595.6
    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

  23. XM_039104919.2 → XP_038960847.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    Related
    ENSRNOP00000081054.1, ENSRNOT00000094844.2
    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

  24. XM_063283703.1 → XP_063139773.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    Related
    ENSRNOP00000096384.1, ENSRNOT00000111623.2

  25. XM_039104920.2 → XP_038960848.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    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

  26. XM_017591722.3 → XP_017447211.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    Related
    ENSRNOP00000100341.1, ENSRNOT00000150408.1
    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

  27. XM_017591729.3 → XP_017447218.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    Related
    ENSRNOP00000111309.1, ENSRNOT00000152631.1
    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

  28. XM_017591725.3 → XP_017447214.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    Related
    ENSRNOP00000103219.1, ENSRNOT00000171939.1
    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

  29. XM_039104923.2 → XP_038960851.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
    Related
    ENSRNOP00000109525.1, ENSRNOT00000134180.1
    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

  30. XM_063283687.1 → XP_063139757.1  leucine-rich repeat-containing protein 4C isoform X1

    UniProtKB/TrEMBL
    A6HNL6, D3ZXT1
Nucleotide Protein Strain
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