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pde6b phosphodiesterase 6B, cGMP-specific, rod, beta [ Danio rerio (zebrafish) ]

Gene ID: 559332, updated on 28-Apr-2024

Summary

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Official Symbol
pde6bprovided by ZNC
Official Full Name
phosphodiesterase 6B, cGMP-specific, rod, betaprovided by ZNC
Primary source
ZFIN:ZDB-GENE-090421-2
See related
Ensembl:ENSDARG00000011671 AllianceGenome:ZFIN:ZDB-GENE-090421-2
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Summary
Predicted to enable 3',5'-cyclic-nucleotide phosphodiesterase activity. Predicted to be involved in retina development in camera-type eye and signal transduction. Predicted to be active in photoreceptor outer segment membrane. Is expressed in eye; retinal neural layer; and retinal photoreceptor layer. Human ortholog(s) of this gene implicated in congenital stationary night blindness autosomal dominant 2 and retinitis pigmentosa 40. Orthologous to human PDE6B (phosphodiesterase 6B). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
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Genomic context

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Location:
chromosome: 21
Exon count:
22
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 21 NC_007132.7 (20356441..20376608)
105 previous assembly GRCz10 (GCF_000002035.5) 21 NC_007132.6 (20319824..20339972)

Chromosome 21 - NC_007132.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101886495 Neighboring gene solute carrier family 26 member 1 Neighboring gene retinol binding protein 4, like Neighboring gene ATP synthase membrane subunit ea Neighboring gene heat shock protein, alpha-crystallin-related, b9-like

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. Pathogenic mutations in retinitis pigmentosa 2 predominantly result in loss of RP2 protein stability in humans and zebrafish. Liu F, et al. J Biol Chem, 2017 Apr 14. PMID 28209709, Free PMC Article
  2. Mutation of cGMP phosphodiesterase 6alpha'-subunit gene causes progressive degeneration of cone photoreceptors in zebrafish. Nishiwaki Y, et al. Mech Dev, 2008 Nov-Dec. PMID 18824093
  3. Loss of Pde6a Induces Rod Outer Segment Shrinkage and Visual Alterations in pde6a(Q70X) Mutant Zebrafish, a Relevant Model of Retinal Dystrophy. Crouzier L, et al. Front Cell Dev Biol, 2021. PMID 34095146, Free PMC Article
  4. The role of mislocalized phototransduction in photoreceptor cell death of retinitis pigmentosa. Nakao T, et al. PLoS One, 2012. PMID 22485131, Free PMC Article
  5. Circadian regulation of phosphodiesterase 6 genes in zebrafish differs between cones and rods: Implications for photopic and scotopic vision. Abalo XM, et al. Vision Res, 2020 Jan. PMID 31855667

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by ZFIN

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 3',5'-cyclic-nucleotide phosphodiesterase activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables phosphoric diester hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in cAMP-mediated signaling IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in retina development in camera-type eye IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within signal transduction IEA
Inferred from Electronic Annotation
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 beta
XP_685002.1

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007132.7 Reference GRCz11 Primary Assembly

    Range
    20356441..20376608
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_679910.8 → XP_685002.1  rod cGMP-specific 3',5'-cyclic phosphodiesterase subunit beta

    UniProtKB/TrEMBL
    A0A8N7TAN6, E7F5I9
    Related
    ENSDARP00000123023.2, ENSDART00000135816.3
    Conserved Domains (2) summary
    smart00065
    Location:253 → 440
    GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
    pfam00233
    Location:557 → 801
    PDEase_I; 3'5'-cyclic nucleotide phosphodiesterase
Nucleotide Protein Strain
Heading Accession and Version

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