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Pde6a phosphodiesterase 6A [ Rattus norvegicus (Norway rat) ]

Gene ID: 307401, updated on 2-Nov-2024

Summary

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Official Symbol
Pde6aprovided by RGD
Official Full Name
phosphodiesterase 6Aprovided by RGD
Primary source
RGD:1306835
See related
EnsemblRapid:ENSRNOG00000017816 AllianceGenome:RGD:1306835
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 3',5'-cyclic-AMP phosphodiesterase activity and 3',5'-cyclic-GMP phosphodiesterase activity. Predicted to be involved in cAMP-mediated signaling and retina development in camera-type eye. Predicted to act upstream of or within photoreceptor cell maintenance. Predicted to be active in photoreceptor outer segment membrane. Human ortholog(s) of this gene implicated in retinitis pigmentosa 43. Orthologous to human PDE6A (phosphodiesterase 6A). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Low expression observed in reference dataset See more
Orthologs
human mouse all
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Genomic context

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See Pde6a in Genome Data Viewer
Location:
18q12.1
Exon count:
22
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (56947249..57019015)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (54676863..54748640)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (56544652..56617480)

Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene HMG-box containing 3 Neighboring gene solute carrier family 26 member 2 Neighboring gene uncharacterized LOC120098169 Neighboring gene PPARG coactivator 1 beta Neighboring gene microRNA 3557 Neighboring gene microRNA 378 Neighboring gene U6 spliceosomal RNA

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. Characteristics of photoreceptor PDE (PDE6): similarities and differences to PDE5. Cote RH. Int J Impot Res, 2004 Jun. PMID 15224133
  2. Translational vision research models program. Won J, et al. Adv Exp Med Biol, 2012. PMID 22183357
  3. Photoreceptor degeneration: genetic and mechanistic dissection of a complex trait. Wright AF, et al. Nat Rev Genet, 2010 Apr. PMID 20212494
  4. Genes and mutations causing retinitis pigmentosa. Daiger SP, et al. Clin Genet, 2013 Aug. PMID 23701314, Free PMC Article
  5. Mouse model resources for vision research. Won J, et al. J Ophthalmol, 2011. PMID 21052544, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables 3',5'-cyclic-AMP phosphodiesterase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 3',5'-cyclic-GMP phosphodiesterase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in cAMP-mediated signaling IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within photoreceptor cell maintenance ISO
Inferred from Sequence Orthology
more info
  
involved_in retina development in camera-type eye IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within retina development in camera-type eye ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
is_active_in photoreceptor outer segment membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha
Names
phosphodiesterase 6A, cGMP-specific, rod, alpha
NP_001100856.1

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_001107386.2 → NP_001100856.1  rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit alpha

    See identical proteins and their annotated locations for NP_001100856.1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000018
    UniProtKB/TrEMBL
    A6IXG6, D3Z8C9
    Related
    ENSRNOP00000024171.4, ENSRNOT00000024171.7
    Conserved Domains (2) summary
    smart00065
    Location:254 → 441
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    pfam00233
    Location:558 → 802
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase

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_086036.1 Reference GRCr8

    Range
    56947249..57019015
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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