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    rida reactive intermediate imine deaminase A homolog [ Danio rerio (zebrafish) ]

    Gene ID: 436849, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ridaprovided by ZNC
    Official Full Name
    reactive intermediate imine deaminase A homologprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040718-315
    See related
    Ensembl:ENSDARG00000035882 AllianceGenome:ZFIN:ZDB-GENE-040718-315
    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
    hrsp12; zgc:92739; zgc:101025
    Summary
    Predicted to enable deaminase activity. Predicted to be involved in mRNA catabolic process and negative regulation of translation. Predicted to be active in cytosol and mitochondrion. Orthologous to human RIDA (reactive intermediate imine deaminase A homolog). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See rida in Genome Data Viewer
    Location:
    chromosome: 19
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (32822218..32838973)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (33235098..33251853)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene 5'-nucleotidase, cytosolic IAa Neighboring gene uncharacterized LOC137488532 Neighboring gene serine/threonine kinase 3 (STE20 homolog, yeast) Neighboring gene si:dkey-284p5.3 Neighboring gene uncharacterized LOC137488533

    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. Positive correlation between gene coexpression and positional clustering in the zebrafish genome. Ng YK, et al. BMC Genomics, 2009 Jan 22. PMID 19159490, Free PMC Article
    2. Hematopoietic gene expression profile in zebrafish kidney marrow. Song HD, et al. Proc Natl Acad Sci U S A, 2004 Nov 16. PMID 15520368, Free PMC Article
    3. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
    4. 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
    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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    Homology

    Clone Names

    • MGC101025

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables 2-iminobutanoate/2-iminopropanoate deaminase IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables deaminase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in mRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in negative regulation of translation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in mitochondrion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    2-iminobutanoate/2-iminopropanoate deaminase
    Names
    endoribonuclease L-PSP
    heat-responsive protein 12
    NP_001002576.2
    NP_001012315.1

    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_001002576.3 → NP_001002576.2  2-iminobutanoate/2-iminopropanoate deaminase isoform 2

      See identical proteins and their annotated locations for NP_001002576.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and 5' coding region compared to variant 1. The resulting protein (isoform 2) is shorter and has a distinct N-terminus compared to isoform 1.
      Source sequence(s)
      BX293540, CR749175
      UniProtKB/TrEMBL
      A0A8M1N0W5, Q3B7E4
      Related
      ENSDARP00000052095.5, ENSDART00000052096.6
      Conserved Domains (1) summary
      cl10015
      Location:5 → 126
      YjgF_YER057c_UK114_family; YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no ...

    2. NM_001012315.2 → NP_001012315.1  2-iminobutanoate/2-iminopropanoate deaminase isoform 1

      See identical proteins and their annotated locations for NP_001012315.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      BX293540, CR749175
      UniProtKB/TrEMBL
      A0A8M1N414, Q6AXL2
      Related
      ENSDARP00000052096.3, ENSDART00000052097.5
      Conserved Domains (1) summary
      TIGR00004
      Location:6 → 128
      TIGR00004; reactive intermediate/imine deaminase

    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_007130.7 Reference GRCz11 Primary Assembly

      Range
      32822218..32838973
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395055.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      280241..292162
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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