Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Nlrc5 NLR family, CARD domain containing 5 [ Mus musculus (house mouse) ]

    Gene ID: 434341, updated on 3-Oct-2021

    Summary

    Official Symbol
    Nlrc5provided by MGI
    Official Full Name
    NLR family, CARD domain containing 5provided by MGI
    Primary source
    MGI:MGI:3612191
    See related
    Ensembl:ENSMUSG00000074151
    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
    NOD27; AI4515; AI451557; AK220210
    Expression
    Biased expression in spleen adult (RPKM 10.6), thymus adult (RPKM 8.9) and 14 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Nlrc5 in Genome Data Viewer
    Location:
    8; 8 C5
    Exon count:
    54
    Annotation release Status Assembly Chr Location
    109 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (95160963..95253900)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (94434335..94527272)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 8 NC_000074.5 (96996663..97051172)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1 Neighboring gene adaptor-related protein complex 3, sigma 1 subunit, pseudogene 2 Neighboring gene RIKEN cDNA 9330175E14 gene Neighboring gene predicted gene, 51584 Neighboring gene microRNA 7072 Neighboring gene copine II Neighboring gene predicted gene, 38555 Neighboring gene proteasome activator subunit 3 interacting protein 1 Neighboring gene uncharacterized LOC115486880

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (5)  1 citation
    • Chemically induced (ENU) (1) 

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within immune system process IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in innate immune response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in intracellular signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in negative regulation of NF-kappaB transcription factor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of type I interferon-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in negative regulation of type I interferon-mediated signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of type I interferon-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of MHC class I biosynthetic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of MHC class I biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interferon-gamma-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of type I interferon-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of kinase activity ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to bacterium IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001033207.3NP_001028379.2  protein NLRC5

      See identical proteins and their annotated locations for NP_001028379.2

      Status: VALIDATED

      Source sequence(s)
      AC121866
      Consensus CDS
      CCDS59741.1
      UniProtKB/Swiss-Prot
      C3VPR6
      Related
      ENSMUSP00000138322.2, ENSMUST00000053085.12
      Conserved Domains (6) summary
      sd00033
      Location:15781605
      LRR_RI; leucine-rich repeat [structural motif]
      sd00034
      Location:14631483
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam05729
      Location:223385
      NACHT; NACHT domain
      pfam17776
      Location:517632
      NLRC4_HD2; NLRC4 helical domain HD2
      pfam18461
      Location:194
      Atypical_Card; Atypical caspase recruitment domain
      cl39015
      Location:15201782
      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 ...

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000074.7 Reference GRCm39 C57BL/6J

      Range
      95160963..95253900
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006531162.3XP_006531225.1  protein NLRC5 isoform X1

      See identical proteins and their annotated locations for XP_006531225.1

      UniProtKB/Swiss-Prot
      C3VPR6
      Related
      ENSMUSP00000148677.2, ENSMUST00000211816.2
      Conserved Domains (6) summary
      sd00033
      Location:15781605
      LRR_RI; leucine-rich repeat [structural motif]
      sd00034
      Location:14631483
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam05729
      Location:223385
      NACHT; NACHT domain
      pfam17776
      Location:517632
      NLRC4_HD2; NLRC4 helical domain HD2
      pfam18461
      Location:194
      Atypical_Card; Atypical caspase recruitment domain
      cl39015
      Location:15201782
      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 ...
    2. XM_006531165.3XP_006531228.1  protein NLRC5 isoform X2

      Conserved Domains (6) summary
      sd00033
      Location:15481575
      LRR_RI; leucine-rich repeat [structural motif]
      sd00034
      Location:14331453
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam05729
      Location:223385
      NACHT; NACHT domain
      pfam17776
      Location:517632
      NLRC4_HD2; NLRC4 helical domain HD2
      pfam18461
      Location:194
      Atypical_Card; Atypical caspase recruitment domain
      cl39015
      Location:14901752
      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 ...
    3. XM_011248428.2XP_011246730.1  protein NLRC5 isoform X1

      See identical proteins and their annotated locations for XP_011246730.1

      UniProtKB/Swiss-Prot
      C3VPR6
      Conserved Domains (6) summary
      sd00033
      Location:15781605
      LRR_RI; leucine-rich repeat [structural motif]
      sd00034
      Location:14631483
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam05729
      Location:223385
      NACHT; NACHT domain
      pfam17776
      Location:517632
      NLRC4_HD2; NLRC4 helical domain HD2
      pfam18461
      Location:194
      Atypical_Card; Atypical caspase recruitment domain
      cl39015
      Location:15201782
      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 ...
    4. XM_006531163.3XP_006531226.1  protein NLRC5 isoform X1

      See identical proteins and their annotated locations for XP_006531226.1

      UniProtKB/Swiss-Prot
      C3VPR6
      Conserved Domains (6) summary
      sd00033
      Location:15781605
      LRR_RI; leucine-rich repeat [structural motif]
      sd00034
      Location:14631483
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam05729
      Location:223385
      NACHT; NACHT domain
      pfam17776
      Location:517632
      NLRC4_HD2; NLRC4 helical domain HD2
      pfam18461
      Location:194
      Atypical_Card; Atypical caspase recruitment domain
      cl39015
      Location:15201782
      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 ...
    5. XM_006531166.1XP_006531229.1  protein NLRC5 isoform X3

      Conserved Domains (5) summary
      sd00033
      Location:14661493
      LRR_RI; leucine-rich repeat [structural motif]
      sd00034
      Location:13511371
      LRR_AMN1; leucine-rich repeat [structural motif]
      pfam05729
      Location:111273
      NACHT; NACHT domain
      pfam17776
      Location:405520
      NLRC4_HD2; NLRC4 helical domain HD2
      cl39015
      Location:14081670
      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 ...
    Support Center