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    Nlrp3 NLR family, pyrin domain containing 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 287362, updated on 24-Sep-2024

    Summary

    Official Symbol
    Nlrp3provided by RGD
    Official Full Name
    NLR family, pyrin domain containing 3provided by RGD
    Primary source
    RGD:1308314
    See related
    EnsemblRapid:ENSRNOG00000003170 AllianceGenome:RGD:1308314
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Cias1
    Summary
    Predicted to enable DNA-binding transcription factor binding activity; identical protein binding activity; and sequence-specific DNA binding activity. Involved in leukocyte migration involved in inflammatory response; response to ethanol; and response to organic cyclic compound. Predicted to be located in Golgi membrane and nucleus. Predicted to be part of NLRP3 inflammasome complex. Biomarker of alcoholic hepatitis. Human ortholog(s) of this gene implicated in CINCA Syndrome; Muckle-Wells syndrome; autosomal dominant nonsyndromic deafness 34; familial cold autoinflammatory syndrome 1; and urticaria. Orthologous to human NLRP3 (NLR family pyrin domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 82.9), Lung (RPKM 27.1) and 8 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Nlrp3 in Genome Data Viewer
    Location:
    10q22
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (44826299..44853373)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (44326770..44353814)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (45884324..45918290)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene zinc finger protein 496 Neighboring gene uncharacterized LOC134480800 Neighboring gene uncharacterized LOC134480694 Neighboring gene olfactory receptor family 2 subfamily B member 11 Neighboring gene olfactory receptor family 2 subfamily AA member 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ADP binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ADP binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables ATP binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables ATP hydrolysis activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables ATP hydrolysis activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables DNA-binding transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables DNA-binding transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables cysteine-type endopeptidase activator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables molecular adaptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables molecular condensate scaffold activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables molecular sensor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables molecular sensor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables phosphatidylinositol phosphate binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables phosphatidylinositol phosphate binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables phosphatidylinositol-4-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables phosphatidylinositol-4-phosphate binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables protein-macromolecule adaptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables signaling adaptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables signaling adaptor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    acts_upstream_of_or_within NLRP3 inflammasome complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in NLRP3 inflammasome complex assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in NLRP3 inflammasome complex assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within activation of cysteine-type endopeptidase activity involved in apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within acute inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to peptidoglycan ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to virus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to Gram-positive bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within defense response to virus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in detection of biotic stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in detection of biotic stimulus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in inflammatory response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in leukocyte migration involved in inflammatory response IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in negative regulation of acute inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of interleukin-1 beta production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of non-canonical NF-kappaB signal transduction IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in negative regulation of non-canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of NF-kappaB transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of T-helper 17 cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of T-helper 2 cell cytokine production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of T-helper 2 cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of cytokine production involved in immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of inflammatory response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within positive regulation of interleukin-1 beta production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-1 beta production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-1 beta production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of interleukin-13 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-4 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-5 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of non-canonical NF-kappaB signal transduction ISO
    Inferred from Sequence Orthology
    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 2 immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein homooligomerization ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein homooligomerization ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in protein maturation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of inflammatory response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within regulation of inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to ethanol IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in response to organic cyclic compound IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in Golgi membrane ISO
    Inferred from Sequence Orthology
    more info
     
    part_of NLRP3 inflammasome complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of NLRP3 inflammasome complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of canonical inflammasome complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of canonical inflammasome complex ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular region IEA
    Inferred from Electronic Annotation
    more info
     
    located_in interphase microtubule organizing center ISO
    Inferred from Sequence Orthology
    more info
     
    located_in interphase microtubule organizing center ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    is_active_in membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in microtubule organizing center IEA
    Inferred from Electronic Annotation
    more info
     
    located_in microtubule organizing center ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
     
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    NACHT, LRR and PYD domains-containing protein 3
    Names
    PYRIN-containing APAF1-like protein 1
    cold autoinflammatory syndrome 1 homolog
    cold autoinflammatory syndrome 1 protein homolog
    cryopyrin
    mast cell maturation-associated-inducible protein 1

    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_001191642.1NP_001178571.1  NACHT, LRR and PYD domains-containing protein 3

      See identical proteins and their annotated locations for NP_001178571.1

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/Swiss-Prot
      D4A523
      Related
      ENSRNOP00000004280.3, ENSRNOT00000004280.7
      Conserved Domains (7) summary
      smart00368
      Location:967994
      LRR_RI; Leucine rich repeat, ribonuclease inhibitor type
      cd00116
      Location:575952
      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 ...
      cd08320
      Location:1090
      Pyrin_NALPs; Pyrin death domain found in NALP proteins
      sd00033
      Location:742770
      LRR_RI; leucine-rich repeat [structural motif]
      pfam05729
      Location:218387
      NACHT; NACHT domain
      pfam14484
      Location:138207
      FISNA; Fish-specific NACHT associated domain
      pfam17779
      Location:466518
      NOD2_WH; NOD2 winged helix domain

    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_086028.1 Reference GRCr8

      Range
      44826299..44853373
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063268610.1XP_063124680.1  NACHT, LRR and PYD domains-containing protein 3 isoform X4

    2. XM_063268609.1XP_063124679.1  NACHT, LRR and PYD domains-containing protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A0G2K391
      Related
      ENSRNOP00000072545.2, ENSRNOT00000086710.3
    3. XM_006246453.5XP_006246515.1  NACHT, LRR and PYD domains-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006246515.1

      UniProtKB/Swiss-Prot
      D4A523
      Conserved Domains (7) summary
      smart00368
      Location:967994
      LRR_RI; Leucine rich repeat, ribonuclease inhibitor type
      cd00116
      Location:575952
      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 ...
      cd08320
      Location:1090
      Pyrin_NALPs; Pyrin death domain found in NALP proteins
      sd00033
      Location:742770
      LRR_RI; leucine-rich repeat [structural motif]
      pfam05729
      Location:218387
      NACHT; NACHT domain
      pfam14484
      Location:138207
      FISNA; Fish-specific NACHT associated domain
      pfam17779
      Location:466518
      NOD2_WH; NOD2 winged helix domain
    4. XM_063268608.1XP_063124678.1  NACHT, LRR and PYD domains-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      D4A523
    5. XM_039085394.2XP_038941322.1  NACHT, LRR and PYD domains-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      D4A523
      Conserved Domains (7) summary
      smart00368
      Location:967994
      LRR_RI; Leucine rich repeat, ribonuclease inhibitor type
      cd00116
      Location:575952
      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 ...
      cd08320
      Location:1090
      Pyrin_NALPs; Pyrin death domain found in NALP proteins
      sd00033
      Location:742770
      LRR_RI; leucine-rich repeat [structural motif]
      pfam05729
      Location:218387
      NACHT; NACHT domain
      pfam14484
      Location:138207
      FISNA; Fish-specific NACHT associated domain
      pfam17779
      Location:466518
      NOD2_WH; NOD2 winged helix domain
    6. XM_039085395.2XP_038941323.1  NACHT, LRR and PYD domains-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      D4A523
      Conserved Domains (7) summary
      smart00368
      Location:967994
      LRR_RI; Leucine rich repeat, ribonuclease inhibitor type
      cd00116
      Location:575952
      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 ...
      cd08320
      Location:1090
      Pyrin_NALPs; Pyrin death domain found in NALP proteins
      sd00033
      Location:742770
      LRR_RI; leucine-rich repeat [structural motif]
      pfam05729
      Location:218387
      NACHT; NACHT domain
      pfam14484
      Location:138207
      FISNA; Fish-specific NACHT associated domain
      pfam17779
      Location:466518
      NOD2_WH; NOD2 winged helix domain
    7. XM_006246455.5XP_006246517.1  NACHT, LRR and PYD domains-containing protein 3 isoform X2

      Conserved Domains (6) summary
      smart00368
      Location:947974
      LRR_RI; Leucine rich repeat, ribonuclease inhibitor type
      cd00116
      Location:575932
      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 ...
      sd00033
      Location:742776
      LRR_RI; leucine-rich repeat [structural motif]
      pfam02758
      Location:888
      PYRIN; PAAD/DAPIN/Pyrin domain
      pfam05729
      Location:218387
      NACHT; NACHT domain
      pfam14484
      Location:138207
      FISNA; Fish-specific NACHT associated domain
    8. XM_006246457.5XP_006246519.1  NACHT, LRR and PYD domains-containing protein 3 isoform X4

      Conserved Domains (6) summary
      COG4886
      Location:738921
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      cd00116
      Location:575940
      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 ...
      sd00033
      Location:742770
      LRR_RI; leucine-rich repeat [structural motif]
      pfam02758
      Location:888
      PYRIN; PAAD/DAPIN/Pyrin domain
      pfam05729
      Location:218387
      NACHT; NACHT domain
      pfam14484
      Location:138207
      FISNA; Fish-specific NACHT associated domain
    9. XM_039085397.2XP_038941325.1  NACHT, LRR and PYD domains-containing protein 3 isoform X5

      Conserved Domains (5) summary
      cd08320
      Location:1090
      Pyrin_NALPs; Pyrin death domain found in NALP proteins
      pfam05729
      Location:218387
      NACHT; NACHT domain
      pfam14484
      Location:138207
      FISNA; Fish-specific NACHT associated domain
      pfam17779
      Location:466518
      NOD2_WH; NOD2 winged helix domain
      cl39015
      Location:575785
      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 ...

    RNA

    1. XR_005489721.2 RNA Sequence

    2. XR_005489722.2 RNA Sequence