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

Summary

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, Dec 2024]
Expression: Low expression observed in reference dataset See more
Orthologs: human mouse all
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Genomic context

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_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH135441 (e-PCR)
- UniSTS:218718

Pde6a (e-PCR), detects polymorphism
- UniSTS:536458

RH139280 (e-PCR)
- UniSTS:221366

RH139346 (e-PCR)
- UniSTS:221432

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

EC 3.1.4.35

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)

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