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

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 AllianceGenome:MGI:3612191
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
Summary: Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in innate immune response; negative regulation of NF-kappaB transcription factor activity; and negative regulation of type I interferon-mediated signaling pathway. Acts upstream of or within response to bacterium. Located in cytosol and nucleus. Is expressed in liver. Orthologous to human NLRC5 (NLR family CARD domain containing 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in spleen adult (RPKM 10.6), thymus adult (RPKM 8.9) and 14 other tissues See more
Orthologs: human all
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Genomic context

Location:: 8 C5; 8 46.55 cM

Exon count:: 54

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	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)

Chromosome 8 - NC_000074.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

NLRC5 Deficiency Reduces LPS-Induced Microglial Activation via Inhibition of NF-kappaB Signaling and Ameliorates Mice's Depressive-like Behavior.
Title: NLRC5 Deficiency Reduces LPS-Induced Microglial Activation via Inhibition of NF-κB Signaling and Ameliorates Mice's Depressive-like Behavior.
USP14-mediated NLRC5 upregulation inhibits endothelial cell activation and inflammation in atherosclerosis.
Title: USP14-mediated NLRC5 upregulation inhibits endothelial cell activation and inflammation in atherosclerosis.
NOD-like receptor NLRC5 promotes neuroinflammation and inhibits neuronal survival in Parkinson's disease models.
Title: NOD-like receptor NLRC5 promotes neuroinflammation and inhibits neuronal survival in Parkinson's disease models.
NLRC5-CIITA Fusion Protein as an Effective Inducer of MHC-I Expression and Antitumor Immunity.
Title: NLRC5-CIITA Fusion Protein as an Effective Inducer of MHC-I Expression and Antitumor Immunity.
Expression pattern of NLRC5 in the postnatal mouse brain.
Title: Expression pattern of NLRC5 in the postnatal mouse brain.
NLRC5 modulates bone metabolism and plays a role in periodontitis.
Title: NLRC5 modulates bone metabolism and plays a role in periodontitis.
NLRC5 Deficiency Deregulates Hepatic Inflammatory Response but Does Not Aggravate Carbon Tetrachloride-Induced Liver Fibrosis.
Title: NLRC5 Deficiency Deregulates Hepatic Inflammatory Response but Does Not Aggravate Carbon Tetrachloride-Induced Liver Fibrosis.
Inhibition of NLRC5 regulates cytokine expression in CD4+ T helper lymphocytes and prolongs murine islet and skin allograft survival.
Title: Inhibition of NLRC5 regulates cytokine expression in CD4+ T helper lymphocytes and prolongs murine islet and skin allograft survival.
Arid2-IR promotes NF-kappaB-mediated renal inflammation by targeting NLRC5 transcription.
Title: Arid2-IR promotes NF-κB-mediated renal inflammation by targeting NLRC5 transcription.
Innate Immune Molecule NLRC5 Protects Mice From Helicobacter-induced Formation of Gastric Lymphoid Tissue.
Title: Innate Immune Molecule NLRC5 Protects Mice From Helicobacter-induced Formation of Gastric Lymphoid Tissue.

Submit: New GeneRIF Correction See all GeneRIFs (35)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (6) 1 citation
Chemically induced (ENU) (1)
Endonuclease-mediated (3)

General gene information

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Markers

D8Mit311 (e-PCR), detects polymorphism
- UniSTS:131526

AI451557 (e-PCR)
- UniSTS:165595

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
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
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
involved_in positive regulation of MHC class I biosynthetic process	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
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 positive regulation of type II 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
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: protein NLRC5

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)

NM_001033207.3 → NP_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, Q571H9

Related

ENSMUSP00000138322.2, ENSMUST00000053085.12

Conserved Domains (6) summary

sd00033
Location:1578 → 1605

LRR_RI; leucine-rich repeat [structural motif]

sd00034
Location:1463 → 1483

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:223 → 385

NACHT; NACHT domain

pfam17776
Location:517 → 632

NLRC4_HD2; NLRC4 helical domain HD2

pfam18461
Location:1 → 94

Atypical_Card; Atypical caspase recruitment domain

cl39015
Location:1520 → 1782

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: 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

NC_000074.7 Reference GRCm39 C57BL/6J

Range

95160963..95253900

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006531162.3 → XP_006531225.1 protein NLRC5 isoform X1

See identical proteins and their annotated locations for XP_006531225.1

UniProtKB/Swiss-Prot

C3VPR6, Q571H9

Related

ENSMUSP00000148677.2, ENSMUST00000211816.2

Conserved Domains (6) summary

sd00033
Location:1578 → 1605

LRR_RI; leucine-rich repeat [structural motif]

sd00034
Location:1463 → 1483

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:223 → 385

NACHT; NACHT domain

pfam17776
Location:517 → 632

NLRC4_HD2; NLRC4 helical domain HD2

pfam18461
Location:1 → 94

Atypical_Card; Atypical caspase recruitment domain

cl39015
Location:1520 → 1782

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 ...
XM_006531165.3 → XP_006531228.1 protein NLRC5 isoform X2

Conserved Domains (6) summary

sd00033
Location:1548 → 1575

LRR_RI; leucine-rich repeat [structural motif]

sd00034
Location:1433 → 1453

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:223 → 385

NACHT; NACHT domain

pfam17776
Location:517 → 632

NLRC4_HD2; NLRC4 helical domain HD2

pfam18461
Location:1 → 94

Atypical_Card; Atypical caspase recruitment domain

cl39015
Location:1490 → 1752

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 ...
XM_011248428.2 → XP_011246730.1 protein NLRC5 isoform X1

See identical proteins and their annotated locations for XP_011246730.1

UniProtKB/Swiss-Prot

C3VPR6, Q571H9

Conserved Domains (6) summary

sd00033
Location:1578 → 1605

LRR_RI; leucine-rich repeat [structural motif]

sd00034
Location:1463 → 1483

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:223 → 385

NACHT; NACHT domain

pfam17776
Location:517 → 632

NLRC4_HD2; NLRC4 helical domain HD2

pfam18461
Location:1 → 94

Atypical_Card; Atypical caspase recruitment domain

cl39015
Location:1520 → 1782

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 ...
XM_006531163.3 → XP_006531226.1 protein NLRC5 isoform X1

See identical proteins and their annotated locations for XP_006531226.1

UniProtKB/Swiss-Prot

C3VPR6, Q571H9

Conserved Domains (6) summary

sd00033
Location:1578 → 1605

LRR_RI; leucine-rich repeat [structural motif]

sd00034
Location:1463 → 1483

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:223 → 385

NACHT; NACHT domain

pfam17776
Location:517 → 632

NLRC4_HD2; NLRC4 helical domain HD2

pfam18461
Location:1 → 94

Atypical_Card; Atypical caspase recruitment domain

cl39015
Location:1520 → 1782

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 ...
XM_006531166.1 → XP_006531229.1 protein NLRC5 isoform X3

Conserved Domains (5) summary

sd00033
Location:1466 → 1493

LRR_RI; leucine-rich repeat [structural motif]

sd00034
Location:1351 → 1371

LRR_AMN1; leucine-rich repeat [structural motif]

pfam05729
Location:111 → 273

NACHT; NACHT domain

pfam17776
Location:405 → 520

NLRC4_HD2; NLRC4 helical domain HD2

cl39015
Location:1408 → 1670

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 ...