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    zgc:56585 zgc:56585 [ Danio rerio (zebrafish) ]

    Gene ID: 393297, updated on 4-Jan-2025

    Summary

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    Official Symbol
    zgc:56585provided by ZNC
    Official Full Name
    zgc:56585provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1084
    See related
    Ensembl:ENSDARG00000026236 AllianceGenome:ZFIN:ZDB-GENE-040426-1084
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:77077
    Summary
    Predicted to enable oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor. Predicted to act upstream of or within prostaglandin metabolic process. Predicted to be active in cytoplasm. Is expressed in segmental plate and yolk syncytial layer. Human ortholog(s) of this gene implicated in colon carcinoma and primary hypertrophic osteoarthropathy. Orthologous to human HPGD (15-hydroxyprostaglandin dehydrogenase). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    all
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    Genomic context

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    See zgc:56585 in Genome Data Viewer
    Location:
    chromosome: 21
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (34835811..34843944, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (34801324..34809654, complement)

    Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137488836 Neighboring gene WD repeat domain 55 Neighboring gene CDC23 (cell division cycle 23, yeast, homolog) Neighboring gene kinesin family member 20A Neighboring gene si:dkey-71d15.2

    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. ERK1 and ERK2 MAPK are key regulators of distinct gene sets in zebrafish embryogenesis. Krens SF, et al. BMC Genomics, 2008 Apr 28. PMID 18442396, 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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    Homology

    Clone Names

    • MGC56585

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within fatty acid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within lipid metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within prostaglandin metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    uncharacterized protein LOC393297

    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_001362369.1 → NP_001349298.1  uncharacterized protein LOC393297 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate exon compared to variant 1. The resulting isoform (2) is shorter at the N-terminus compared to isoform 1.
      Source sequence(s)
      BX957298
      Conserved Domains (1) summary
      cl25409
      Location:1 → 167
      SDR; Short-chain dehydrogenases/reductases (SDR)

    2. NM_200327.2 → NP_956621.2  uncharacterized protein LOC393297 isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BX957298, EH591701
      UniProtKB/TrEMBL
      A0A8M9P379, F1QBQ6, Q7ZTX3
      Related
      ENSDARP00000120430.1, ENSDART00000136402.3
      Conserved Domains (1) summary
      cd05323
      Location:6 → 254
      ADH_SDR_c_like; insect type alcohol dehydrogenase (ADH)-like, classical (c) SDRs

    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_007132.7 Reference GRCz11 Primary Assembly

      Range
      34835811..34843944 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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