NM_000440.3(PDE6A):c.1674C>T (p.Tyr558=) AND not provided

This record was updated by the submitter. Please see the current version.

Germline classification:: Likely benign (1 submission)
Last evaluated:: Aug 9, 2022
Review status:: 1 star out of maximum of 4 stars
criteria provided, single submitter

Somatic classification of clinical impact:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Somatic classification of oncogenicity:: None
Review status:: (0/4) 0 stars out of maximum of 4 stars
no assertion criteria provided

Record status:: current
Accession:: RCV001502551.6

Allele description

NM_000440.3(PDE6A):c.1674C>T (p.Tyr558=)

Gene:

PDE6A:phosphodiesterase 6A [Gene - OMIM - HGNC]

Variant type:

single nucleotide variant

Cytogenetic location:

5q32

Genomic location:

Preferred name:

NM_000440.3(PDE6A):c.1674C>T (p.Tyr558=)

HGVS:

NC_000005.10:g.149895237G>A
NG_009102.1:g.54557C>T
NM_000440.3:c.1674C>TMANE SELECT
NP_000431.2:p.Tyr558=
NC_000005.9:g.149274800G>A

Links:

dbSNP: rs375659222

NCBI 1000 Genomes Browser:

rs375659222

Molecular consequence:

NM_000440.3:c.1674C>T - synonymous variant - [Sequence Ontology: SO:0001819]

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

Recent activity

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BB132020 RIKEN full-length enriched, 16 days neonate cerebellum Mus musculus cDN...
BB132020 RIKEN full-length enriched, 16 days neonate cerebellum Mus musculus cDNA clone 9630058G16 3', mRNA sequence
gi|16266435|gnl|dbEST|9906828|dbj|B 20.2|

Nucleotide
C0917B02-3 NIA Mouse 12.5-dpc Male Genital Ridge/Mesonephros cDNA Library (Long)...
C0917B02-3 NIA Mouse 12.5-dpc Male Genital Ridge/Mesonephros cDNA Library (Long) Mus musculus cDNA clone NIA:C0917B02 IMAGE:30036205 3', mRNA sequence
gi|31477736|gnl|dbEST|18556828|gb|B 77.2|

Nucleotide
AV270935 RIKEN full-length enriched mouse cDNA library, C57BL/6J testis male adu...
AV270935 RIKEN full-length enriched mouse cDNA library, C57BL/6J testis male adult Mus musculus cDNA clone 4931403E02 3', mRNA sequence
gi|15405444|gnl|dbEST|9383610|dbj|A 35.2|

Nucleotide
suppressor of cytokine signaling 5, partial [Aubria subsigillata]
suppressor of cytokine signaling 5, partial [Aubria subsigillata]
gi|1304833808|gb|AUD52179.1|

Protein
Ophiura kinbergi isolate SYSK7 cytochrome c oxidase subunit I (COI) gene, partia...
Ophiura kinbergi isolate SYSK7 cytochrome c oxidase subunit I (COI) gene, partial cds; mitochondrial
gi|1843790745|gb|MN183292.1|

Nucleotide

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV001707385	Invitae	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Likely benign (Aug 9, 2022)	germline	clinical testing	PubMed (1) [See all records that cite this PMID]

Submission Accession

Submitter

Review Status
(Assertion method)

Clinical Significance
(Last evaluated)

Origin

Method

Citations

SCV001707385

Invitae

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Likely benign
(Aug 9, 2022)

germline

clinical testing

PubMed (1)
[See all records that cite this PMID]

Help

Summary from all submissions

Ethnicity	Origin	Affected	Individuals	Families	Chromosomes tested	Number Tested	Family history	Method
not provided	germline	unknown	not provided	not provided	not provided	not provided	not provided	clinical testing

Citations

PubMed

Sherloc: a comprehensive refinement of the ACMG-AMP variant classification criteria.

Nykamp K, Anderson M, Powers M, Garcia J, Herrera B, Ho YY, Kobayashi Y, Patil N, Thusberg J, Westbrook M; Invitae Clinical Genomics Group., Topper S.

Genet Med. 2017 Oct;19(10):1105-1117. doi: 10.1038/gim.2017.37. Epub 2017 May 11. Erratum in: Genet Med. 2020 Jan;22(1):240. doi: 10.1038/s41436-019-0624-9.

PubMed [citation]

PMID:: 28492532
PMCID:: PMC5632818

Details of each submission

From Invitae, SCV001707385.4

#	Ethnicity	Individuals	Chromosomes Tested	Family History	Method	Citations
1	not provided	not provided	not provided	not provided	clinical testing	PubMed (1)

#	Sample				Method		Observation
#	Origin	Affected	Number tested	Tissue	Purpose	Method	Individuals	Allele frequency	Families	Co-occurrences
1	germline	unknown	not provided	not provided	not provided		not provided	not provided	not provided	not provided

Last Updated: Feb 20, 2024

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