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    gpatch3 G patch domain containing 3 [ Danio rerio (zebrafish) ]

    Gene ID: 791148, updated on 9-Dec-2024

    Summary

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    Official Symbol
    gpatch3provided by ZNC
    Official Full Name
    G patch domain containing 3provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-070112-902
    See related
    Ensembl:ENSDARG00000052747 AllianceGenome:ZFIN:ZDB-GENE-070112-902
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:158863
    Summary
    Predicted to enable nucleic acid binding activity. Acts upstream of or within camera-type eye development and cranial skeletal system development. Is expressed in head; musculature system; and otic vesicle. Orthologous to human GPATCH3 (G-patch domain containing 3). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See gpatch3 in Genome Data Viewer
    Location:
    chromosome: 16
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (53590567..53601610)
    105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (53703572..53714783)

    Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene serine/threonine-protein kinase pim-2-like Neighboring gene dentin sialophosphoprotein-like Neighboring gene uncharacterized LOC108179658 Neighboring gene SAC1 like phosphatidylinositide phosphatase b Neighboring gene mucin-21

    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. Whole-Exome Sequencing of Congenital Glaucoma Patients Reveals Hypermorphic Variants in GPATCH3, a New Gene Involved in Ocular and Craniofacial Development. Ferre-Fernández JJ, et al. Sci Rep, 2017 Apr 11. PMID 28397860, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within camera-type eye development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cranial skeletal system development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of RIG-I signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within negative regulation of type I interferon production IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    G patch domain-containing protein 3

    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_001080630.1 → NP_001074099.1  G patch domain-containing protein 3

      See identical proteins and their annotated locations for NP_001074099.1

      Status: PROVISIONAL

      Source sequence(s)
      BC129499
      UniProtKB/TrEMBL
      A0A8M9PMM4, A1L2F7
      Conserved Domains (2) summary
      smart00443
      Location:566 → 612
      G_patch; glycine rich nucleic binding domain
      cl17169
      Location:12 → 31
      RRM_SF; RNA recognition motif (RRM) superfamily

    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_007127.7 Reference GRCz11 Primary Assembly

      Range
      53590567..53601610
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005158454.5 → XP_005158511.1  G patch domain-containing protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8M2B4U6, A0A8M9PMM4
      Related
      ENSDARP00000077969.6, ENSDART00000083534.6
      Conserved Domains (2) summary
      smart00443
      Location:585 → 631
      G_patch; glycine rich nucleic binding domain
      cl17169
      Location:12 → 31
      RRM_SF; RNA recognition motif (RRM) superfamily
    Nucleotide Protein Strain
    Heading Accession and Version

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