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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
    Heading Accession and Version

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