NC_000002.11:g.(?_239306080)_(239307560_?)del AND not provided

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Mar 2, 2023
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:: RCV003119643.5

Allele description [Variation Report for NC_000002.11:g.(?_239306080)_(239307560_?)del]

NC_000002.11:g.(?_239306080)_(239307560_?)del

Gene:: TRAF3IP1:TRAF3 interacting protein 1 [Gene - OMIM - HGNC]
Variant type:: Deletion
Cytogenetic location:: 2q37.3
Genomic location:: Chr2: 239306080 - 239307560 (on Assembly GRCh37)
Preferred name:: NC_000002.11:g.(?_239306080)_(239307560_?)del
HGVS:: NC_000002.11:g.(?_239306080)_(239307560_?)del
This HGVS expression did not pass validation

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

Recent activity

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Homo sapiens RAB22A, member RAS oncogene family (RAB22A), mRNA
Homo sapiens RAB22A, member RAS oncogene family (RAB22A), mRNA
gi|1519242703|ref|NM_020673.3|

Nucleotide
NADH dehydrogenase subunit 2 (mitochondrion) [Gypohierax angolensis]
NADH dehydrogenase subunit 2 (mitochondrion) [Gypohierax angolensis]
gi|66734843|gb|AAY53661.1|

Protein
50 kb inversion clade PsbA (psbA) gene, partial cds; and psbA-trnH intergenic sp...
50 kb inversion clade PsbA (psbA) gene, partial cds; and psbA-trnH intergenic spacer, partial sequence; chloroplast.
PopSet: 407180478

PopSet
NPDC-1, partial [Homo sapiens]
NPDC-1, partial [Homo sapiens]
gi|9050060|gb|AAF82603.1|

Protein
Camelids, New World
Camelids, New World
Camelidae of the Americas. The extant species are those originating from South America and include alpacas, llamas, guanicos, and vicunas.<br/>Year introduced: 1991(1975)

MeSH

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003794094	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Mar 2, 2023)	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

SCV003794094

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Mar 2, 2023)

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, SCV003794094.3

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

Description

This variant is a gross deletion of the genomic region encompassing exon(s) 16-17 of the TRAF3IP1 gene, which includes the termination codon. This deletion extends beyond the assayed region for this gene and therefore may encompass additional genes. While this deletion is not anticipated to lead to nonsense mediated decay, it is expected to alter mRNA translation or result in a truncated protein product. This variant has not been reported in the literature in individuals affected with TRAF3IP1-related conditions. In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.

#	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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