Format

Send to:

Choose Destination

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

Gene ID: 434341, updated on 16-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; 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