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    Dph3 diphthamide biosynthesis 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 680594, updated on 3-Apr-2024

    Summary

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    Official Symbol
    Dph3provided by RGD
    Official Full Name
    diphthamide biosynthesis 3provided by RGD
    Primary source
    RGD:1590566
    See related
    AllianceGenome:RGD:1590566
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable metal ion binding activity. Predicted to be involved in several processes, including negative regulation of protein secretion; peptidyl-diphthamide biosynthetic process from peptidyl-histidine; and tRNA wobble uridine modification. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be active in cytosol and nucleus. Orthologous to several human genes including DPH3 (diphthamide biosynthesis 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Muscle (RPKM 99.8), Testes (RPKM 80.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Dph3 in Genome Data Viewer
    Location:
    16p16
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (7294580..7299996, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (7288295..7293734, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (8202048..8207492, complement)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134482453 Neighboring gene polypeptide N-acetylgalactosaminyltransferase 15 Neighboring gene oxidoreductase NAD-binding domain containing 1 Neighboring gene transfer RNA valine (anticodon AAC) 12 Neighboring gene uncharacterized LOC134482455 Neighboring gene microseminoprotein, beta

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Characterisation of an evolutionary conserved protein interacting with the putative guanine nucleotide exchange factor DelGEF and modulating secretion. Sjölinder M, et al. Exp Cell Res, 2004 Mar 10. PMID 14980502
    2. 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
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC188477

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in negative regulation of protein secretion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein histidyl modification to diphthamide ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    diphthamide biosynthesis protein 3
    Names
    DPH3 homolog
    DPH3, KTI11 homolog
    DPH3, KTI11 homolog; zinc finger, CSL domain containing 2
    zinc finger, CSL domain containing 2

    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_001134850.2 → NP_001128322.1  diphthamide biosynthesis protein 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/TrEMBL
      D4A0Z4
      Conserved Domains (1) summary
      pfam05207
      Location:6 → 60
      zf-CSL; CSL zinc finger

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086034.1 Reference GRCr8

      Range
      7294580..7299996 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006252668.4 → XP_006252730.1  diphthamide biosynthesis protein 3 isoform X1

      Conserved Domains (1) summary
      pfam05207
      Location:6 → 45
      zf-CSL; CSL zinc finger
    Nucleotide Protein Strain
    Heading Accession and Version

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