Pde6d phosphodiesterase 6D [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pde6dprovided by RGD
Official Full Name: phosphodiesterase 6Dprovided by RGD
Primary source: RGD:1306204
See related: EnsemblRapid:ENSRNOG00000018610 AllianceGenome:RGD:1306204
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 GTPase inhibitor activity and small GTPase binding activity. Predicted to be involved in visual perception. Predicted to be located in cytoplasmic vesicle and cytosol. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in Joubert syndrome 22. Orthologous to human PDE6D (phosphodiesterase 6D). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 92.5), Heart (RPKM 80.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q35

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (94640932..94685918, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (87192989..87237979, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (93562099..93607061, complement)

Chromosome 9 - NC_086027.1 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

RH128201 (e-PCR)
- UniSTS:211509

RH140555 (e-PCR)
- UniSTS:222624

RH140589 (e-PCR)
- UniSTS:222658

RH140092 (e-PCR)
- UniSTS:222173

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTPase inhibitor activity	ISO Inferred from Sequence Orthology more info
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in visual perception	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic vesicle	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta

Names: phosphodiesterase 6D, cGMP-specific, rod, delta

NP_001102276.2

EC 3.1.4.17

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_001108806.2 → NP_001102276.2 retinal rod rhodopsin-sensitive cGMP 3',5'-cyclic phosphodiesterase subunit delta

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A6JWI9, A6JWJ0, D3ZRD3

Related

ENSRNOP00000025262.6, ENSRNOT00000025262.8

Conserved Domains (1) summary

pfam05351
Location:10 → 149

GMP_PDE_delta; GMP-PDE, delta subunit