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si:ch211-114l13.1 si:ch211-114l13.1 [ Danio rerio (zebrafish) ]

Gene ID: 566121, updated on 11-Apr-2024

Summary

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Official Symbol
si:ch211-114l13.1provided by ZNC
Official Full Name
si:ch211-114l13.1provided by ZNC
Primary source
ZFIN:ZDB-GENE-070424-109
See related
Ensembl:ENSDARG00000093323 AllianceGenome:ZFIN:ZDB-GENE-070424-109
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary
Predicted to be involved in intracellular signal transduction. Human ortholog(s) of this gene implicated in several diseases, including CINCA Syndrome; Muckle-Wells syndrome; autosomal dominant nonsyndromic deafness 34; familial cold autoinflammatory syndrome (multiple); and gestational trophoblastic neoplasm. Orthologous to several human genes including NLRP13 (NLR family pyrin domain containing 13); NLRP14 (NLR family pyrin domain containing 14); and NLRP2 (NLR family pyrin domain containing 2). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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See si:ch211-114l13.1 in Genome Data Viewer
Location:
chromosome: 1
Exon count:
9
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (58091640..58103125)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (57355977..57367443)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene caspase b Neighboring gene si:ch211-114l13.13 Neighboring gene NLR family, CARD domain containing 10 Neighboring gene si:ch211-15j1.5 Neighboring gene caspase b, like

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
  • 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. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
  3. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Gene Ontology Provided by ZFIN

Process Evidence Code Pubs
involved_in intracellular signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
protein NLRC3
Names
NOD-like receptor C

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007112.7 Reference GRCz11 Primary Assembly

    Range
    58091640..58103125
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005160210.4 → XP_005160267.1  protein NLRC3

    UniProtKB/TrEMBL
    A0A8M2B723, F1R020
    Related
    ENSDARP00000113293.2, ENSDART00000144190.4
    Conserved Domains (5) summary
    sd00031
    Location:696 → 724
    LRR_1; leucine-rich repeat [structural motif]
    cd16040
    Location:798 → 977
    SPRY_PRY_SNTX; Stonustoxin subunit alpha or SNTX subunit alpha
    pfam05729
    Location:175 → 342
    NACHT; NACHT domain
    pfam14484
    Location:96 → 166
    FISNA; Fish-specific NACHT associated domain
    cl26161
    Location:592 → 789
    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_021477864.1 → XP_021333539.1  protein NLRC3

    UniProtKB/TrEMBL
    A0A8M2B723, F1R020
    Conserved Domains (5) summary
    sd00031
    Location:696 → 724
    LRR_1; leucine-rich repeat [structural motif]
    cd16040
    Location:798 → 977
    SPRY_PRY_SNTX; Stonustoxin subunit alpha or SNTX subunit alpha
    pfam05729
    Location:175 → 342
    NACHT; NACHT domain
    pfam14484
    Location:96 → 166
    FISNA; Fish-specific NACHT associated domain
    cl26161
    Location:592 → 789
    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 ...
Nucleotide Protein
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