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Ptcd2 pentatricopeptide repeat domain 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 310025, updated on 14-Nov-2024

Summary

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Official Symbol
Ptcd2provided by RGD
Official Full Name
pentatricopeptide repeat domain 2provided by RGD
Primary source
RGD:1310308
See related
EnsemblRapid:ENSRNOG00000028403 AllianceGenome:RGD:1310308
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to be involved in mitochondrion organization and regulation of mRNA processing. Predicted to act upstream of or within several processes, including liver development; muscle cell development; and ventricular cardiac muscle tissue morphogenesis. Predicted to be active in mitochondrion. Orthologous to human PTCD2 (pentatricopeptide repeat domain 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 28.8), Heart (RPKM 27.0) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Ptcd2 in Genome Data Viewer
Location:
2q12
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (32446441..32474114, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (30712276..30739968, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (29570581..29598328, complement)

Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120100683 Neighboring gene uncharacterized LOC134485827 Neighboring gene zinc finger protein 366 Neighboring gene mitochondrial ribosomal protein S27 Neighboring gene microtubule-associated protein 1B

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 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. Disruption of a mitochondrial RNA-binding protein gene results in decreased cytochrome b expression and a marked reduction in ubiquinol-cytochrome c reductase activity in mouse heart mitochondria. Xu F, et al. Biochem J, 2008 Nov 15. PMID 18729827
  2. The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts. Baltz AG, et al. Mol Cell, 2012 Jun 8. PMID 22681889
  3. A mitochondrial protein compendium elucidates complex I disease biology. Pagliarini DJ, et al. Cell, 2008 Jul 11. PMID 18614015, Free PMC Article
  4. Insights into RNA biology from an atlas of mammalian mRNA-binding proteins. Castello A, et al. Cell, 2012 Jun 8. PMID 22658674
  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

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
acts_upstream_of_or_within heart development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within kidney development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within liver development ISO
Inferred from Sequence Orthology
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mitochondrion organization IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within mitochondrion organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within muscle cell development ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of gene expression ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of mRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within regulation of mRNA processing ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within ventricular cardiac muscle tissue morphogenesis ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in mitochondrion IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
pentatricopeptide repeat-containing protein 2, mitochondrial

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_001107648.1 → NP_001101118.1  pentatricopeptide repeat-containing protein 2, mitochondrial

    See identical proteins and their annotated locations for NP_001101118.1

    Status: PROVISIONAL

    Source sequence(s)
    CH473955
    UniProtKB/TrEMBL
    A6I558, D4A9I4
    Related
    ENSRNOP00000033932.5, ENSRNOT00000034992.7
    Conserved Domains (2) summary
    sd00004
    Location:130 → 152
    PPR; PPR repeat [structural motif]
    pfam10037
    Location:98 → 205
    MRP-S27; Mitochondrial 28S ribosomal protein S27

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_086020.1 Reference GRCr8

    Range
    32446441..32474114 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006231847.5 → XP_006231909.1  pentatricopeptide repeat-containing protein 2, mitochondrial isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZPV5
    Related
    ENSRNOP00000080356.1, ENSRNOT00000104240.2
    Conserved Domains (2) summary
    sd00004
    Location:130 → 152
    PPR; PPR repeat [structural motif]
    pfam10037
    Location:97 → 205
    MRP-S27; Mitochondrial 28S ribosomal protein S27
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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