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sqd-1 RRM domain-containing protein [ Caenorhabditis elegans ]

Gene ID: 177392, updated on 9-Dec-2024

Summary

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Official Symbol
sqd-1
Official Full Name
RRM domain-containing protein
Primary source
WormBase:WBGene00022235
Locus tag
CELE_Y73B6BL.6
See related
AllianceGenome:WB:WBGene00022235
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Predicted to enable mRNA 3'-UTR binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be part of catalytic step 2 spliceosome. Human ortholog(s) of this gene implicated in autosomal dominant limb-girdle muscular dystrophy type 3 and hepatocellular carcinoma. Orthologous to human HNRNPAB (heterogeneous nuclear ribonucleoprotein A/B) and HNRNPDL (heterogeneous nuclear ribonucleoprotein D like). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See sqd-1 in Genome Data Viewer
Location:
chromosome: IV
Exon count:
4
Sequence:
Chromosome: IV; NC_003282.8 (6324174..6326422)

Chromosome IV - NC_003282.8Genomic Context describing neighboring genes Neighboring gene Thioredoxin domain-containing protein Neighboring gene tRNA pseudouridine synthase Neighboring gene U6 snRNA-associated Sm-like protein LSm8 Neighboring gene Protein seu-1

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003282.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Genome-wide analysis of GLD-1-mediated mRNA regulation suggests a role in mRNA storage. Scheckel C, et al. PLoS Genet, 2012 May. PMID 22693456, Free PMC Article
  2. Conserved RNA-binding proteins required for dendrite morphogenesis in Caenorhabditis elegans sensory neurons. Antonacci S, et al. G3 (Bethesda), 2015 Feb 10. PMID 25673135, Free PMC Article
  3. Identification of proteins and miRNAs that specifically bind an mRNA in vivo. Theil K, et al. Nat Commun, 2019 Sep 16. PMID 31527589, Free PMC Article
  4. RNA-binding protein GLD-1/quaking genetically interacts with the mir-35 and the let-7 miRNA pathways in Caenorhabditis elegans. Akay A, et al. Open Biol, 2013 Nov 20. PMID 24258276, Free PMC Article
  5. β-Integrin de-phosphorylation by the Density-Enhanced Phosphatase DEP-1 attenuates EGFR signaling in C. elegans. Walser M, et al. PLoS Genet, 2017 Jan. PMID 28135265, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables mRNA 3'-UTR binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
RRM domain-containing protein
NP_001380079.1
  • Confirmed by transcript evidence
NP_001380080.1
  • Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003282.8 Reference assembly

    Range
    6324174..6326422
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001392315.1 → NP_001380080.1  RRM domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q4W5P0
    Conserved Domains (2) summary
    cd21608
    Location:30 → 104
    RRM2_NsCP33_like; RNA recognition motif 2 (RRM2) found in Nicotiana sylvestris chloroplastic 33 kDa ribonucleoprotein (NsCP33) and similar proteins
    cl17169
    Location:111 → 185
    RRM_SF; RNA recognition motif (RRM) superfamily

  2. NM_001392316.1 → NP_001380079.1  RRM domain-containing protein [Caenorhabditis elegans]

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q8MXR6
    Conserved Domains (2) summary
    cd21608
    Location:30 → 104
    RRM2_NsCP33_like; RNA recognition motif 2 (RRM2) found in Nicotiana sylvestris chloroplastic 33 kDa ribonucleoprotein (NsCP33) and similar proteins
    cl17169
    Location:111 → 185
    RRM_SF; RNA recognition motif (RRM) superfamily
Nucleotide Protein
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