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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

Gene LinkOut

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