NC_000016.10:g.(?_5080946)_(5097739_?)del AND ALG1-congenital disorder of glycosylation

Germline classification:: Likely pathogenic (1 submission)
Last evaluated:: Aug 4, 2021
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:: RCV000708294.5

Allele description [Variation Report for NC_000016.10:g.(?_5080946)_(5097739_?)del]

NC_000016.10:g.(?_5080946)_(5097739_?)del

Genes:

ALG1:ALG1 chitobiosyldiphosphodolichol beta-mannosyltransferase [Gene - OMIM - HGNC]
EEF2KMT:eukaryotic elongation factor 2 lysine methyltransferase [Gene - OMIM - HGNC]

Variant type:

Deletion

Cytogenetic location:

16p13.3

Genomic location:

Preferred name:

NC_000016.10:g.(?_5080946)_(5097739_?)del

HGVS:

NC_000016.10:g.(?_5080946)_(5097739_?)del
NC_000016.9:g.(?_5130947)_(5147740_?)del

Condition(s)

Name:: ALG1-congenital disorder of glycosylation
Synonyms:: CONGENITAL DISORDER OF GLYCOSYLATION, TYPE Ik; CDG Ik; Congenital disorder of glycosylation type 1K; See all synonyms [MedGen]
Identifiers:: MONDO: MONDO:0012052; MedGen: C2931005; Orphanet: 79327; OMIM: 608540

Recent activity

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Homo sapiens cDNA, FLJ99174
Homo sapiens cDNA, FLJ99174
gi|164697848|dbj|AK309133.1|

Nucleotide
Homo sapiens RNA binding motif protein 44, mRNA (cDNA clone IMAGE:8991827), comp...
Homo sapiens RNA binding motif protein 44, mRNA (cDNA clone IMAGE:8991827), complete cds
gi|116496598|gb|BC126111.1|

Nucleotide
Alcohol-Use Disorders
Alcohol-Use Disorders
LOC132412886 [Mus musculus]
LOC132412886 [Mus musculus]
Gene ID:132412886

Gene
Prmt7 protein arginine N-methyltransferase 7 [Mus musculus]
Prmt7 protein arginine N-methyltransferase 7 [Mus musculus]
Gene ID:214572

Gene

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000837404	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Likely pathogenic (Aug 4, 2021)	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

SCV000837404

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Likely pathogenic
(Aug 4, 2021)

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 Labcorp Genetics (formerly Invitae), Labcorp, SCV000837404.2

#	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: Sep 29, 2024

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