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si:ch211-195h23.3 si:ch211-195h23.3 [ Danio rerio (zebrafish) ]

Gene ID: 100170660, updated on 18-Sep-2024

Summary

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Official Symbol
si:ch211-195h23.3provided by ZNC
Official Full Name
si:ch211-195h23.3provided by ZNC
Primary source
ZFIN:ZDB-GENE-070912-174
See related
Ensembl:ENSDARG00000068431 AllianceGenome:ZFIN:ZDB-GENE-070912-174
Gene type
protein coding
RefSeq status
PREDICTED
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
Gene2604; Gene38616
Summary
Predicted to enable cysteine-type endopeptidase activity involved in apoptotic signaling pathway and cysteine-type endopeptidase activity involved in execution phase of apoptosis. Acts upstream of or within negative regulation of NF-kappaB transcription factor activity. Located in nucleus. Is expressed in kidney and spleen. Human ortholog(s) of this gene implicated in inflammatory bowel disease 30. Orthologous to human CARD8 (caspase recruitment domain family member 8). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
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Genomic context

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Location:
chromosome: 2
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (43920453..43956017)
105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (44067461..44103019)

Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene zinc finger E-box binding homeobox 1a Neighboring gene NOD-like receptor family B, member 5 Neighboring gene uncharacterized LOC103910111 Neighboring gene guanylate binding protein 3 Neighboring gene uncharacterized LOC137487397 Neighboring gene kirre like nephrin family adhesion molecule 1b Neighboring gene cell adhesion molecule 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Structure of the caspase-recruitment domain from a zebrafish guanylate-binding protein. Jin T, et al. Acta Crystallogr Sect F Struct Biol Cryst Commun, 2013 Aug. PMID 23908027, Free PMC Article
  2. Structure and expression pattern of teleost caspase recruitment domain (CARD) containing proteins that are potentially involved in NF-kappaB signalling. Chang MX, et al. Dev Comp Immunol, 2010 Jan. PMID 19699229
  3. NOD1 deficiency impairs CD44a/Lck as well as PI3K/Akt pathway. Hu YW, et al. Sci Rep, 2017 Jun 7. PMID 28592872, Free PMC Article
  4. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables GTP binding IEA
Inferred from Electronic Annotation
more info
  
enables GTPase activity IEA
Inferred from Electronic Annotation
more info
  
enables cysteine-type endopeptidase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables pattern recognition receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in activation of innate immune response IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within immune system process IEA
Inferred from Electronic Annotation
more info
  
involved_in inflammatory response IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within inflammatory response IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within innate immune response IEA
Inferred from Electronic Annotation
more info
  
involved_in intrinsic apoptotic signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within negative regulation of NF-kappaB transcription factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within regulation of apoptotic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of NLRP3 inflammasome complex IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
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 

General protein information

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Preferred Names
uncharacterized protein LOC100170660
Names
CARD-like protein
CARD-rel

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_001130402.1 → NP_001123874.1  uncharacterized protein LOC100170660

    See identical proteins and their annotated locations for NP_001123874.1

    Status: PREDICTED

    Source sequence(s)
    EU810206
    UniProtKB/TrEMBL
    B0V1H3, B5A4B6
    Related
    ENSDARP00000111270.2, ENSDART00000123673.3
    Conserved Domains (2) summary
    cd08330
    Location:387 → 468
    CARD_ASC_NALP1; Caspase activation and recruitment domain found in Human ASC, NALP1, and similar proteins
    pfam13553
    Location:119 → 361
    FIIND; Function to find

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007113.7 Reference GRCz11 Primary Assembly

    Range
    43920453..43956017
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068222714.1 → XP_068078815.1  uncharacterized protein LOC100170660 isoform X1

  2. XM_068222715.1 → XP_068078816.1  uncharacterized protein LOC100170660 isoform X2

Nucleotide Protein Strain
Heading Accession and Version

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