NC_000005.9:g.(?_33944753)_(39364566_?)dup AND not provided

Germline classification:: Uncertain significance (1 submission)
Last evaluated:: Feb 20, 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:: RCV003107632.4

Allele description [Variation Report for NC_000005.9:g.(?_33944753)_(39364566_?)dup]

NC_000005.9:g.(?_33944753)_(39364566_?)dup

Genes:

C1QTNF3:C1q and TNF related 3 [Gene - OMIM - HGNC]
DNAJC21:DnaJ heat shock protein family (Hsp40) member C21 [Gene - OMIM - HGNC]
EGFLAM:EGF like, fibronectin type III and laminin G domains [Gene - OMIM - HGNC]
EGFLAM-AS2:EGFLAM antisense RNA 2 [Gene - HGNC]
EGFLAM-AS4:EGFLAM antisense RNA 4 [Gene - HGNC]
FYB1:FYN binding protein 1 [Gene - OMIM - HGNC]
GDNF-AS1:GDNF antisense RNA 1 [Gene - HGNC]
LIFR:LIF receptor subunit alpha [Gene - OMIM - HGNC]
LMBRD2:LMBR1 domain containing 2 [Gene - OMIM - HGNC]
NADK2:NAD kinase 2, mitochondrial [Gene - OMIM - HGNC]
NIPBL:NIPBL cohesin loading factor [Gene - OMIM - HGNC]
RAD1:RAD1 checkpoint DNA exonuclease [Gene - OMIM - HGNC]
RANBP3L:RAN binding protein 3 like [Gene - OMIM - HGNC]
RICTOR:RPTOR independent companion of MTOR complex 2 [Gene - OMIM - HGNC]
SKP2:S-phase kinase associated protein 2 [Gene - OMIM - HGNC]
UGT3A1:UDP glycosyltransferase family 3 member A1 [Gene - OMIM - HGNC]
UGT3A2:UDP glycosyltransferase family 3 member A2 [Gene - OMIM - HGNC]
WDR70:WD repeat domain 70 [Gene - OMIM - HGNC]
AGXT2:alanine--glyoxylate aminotransferase 2 [Gene - OMIM - HGNC]
AMACR:alpha-methylacyl-CoA racemase [Gene - OMIM - HGNC]
BRIX1:biogenesis of ribosomes BRX1 [Gene - OMIM - HGNC]
CAPSL:calcyphosine like [Gene - OMIM - HGNC]
CPLANE1:ciliogenesis and planar polarity effector complex subunit 1 [Gene - OMIM - HGNC]
C9:complement C9 [Gene - OMIM - HGNC]
GDNF:glial cell derived neurotrophic factor [Gene - OMIM - HGNC]
IL7R:interleukin 7 receptor [Gene - OMIM - HGNC]
NUP155:nucleoporin 155 [Gene - OMIM - HGNC]
OSMR:oncostatin M receptor [Gene - OMIM - HGNC]
PRLR:prolactin receptor [Gene - OMIM - HGNC]
RAI14:retinoic acid induced 14 [Gene - OMIM - HGNC]
SLC1A3:solute carrier family 1 member 3 [Gene - OMIM - HGNC]
SLC45A2:solute carrier family 45 member 2 [Gene - OMIM - HGNC]
SPEF2:sperm flagellar 2 [Gene - OMIM - HGNC]
TTC23L:tetratricopeptide repeat domain 23 like [Gene - OMIM - HGNC]

Variant type:

Duplication

Cytogenetic location:

5p13.2-13.1

Genomic location:

Chr5: 33944753 - 39364566 (on Assembly GRCh37)

Preferred name:

NC_000005.9:g.(?_33944753)_(39364566_?)dup

HGVS:

NC_000005.9:g.(?_33944753)_(39364566_?)dup

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: C3661900

Recent activity

Clear Turn Off Turn On

Your browsing activity is empty.

Activity recording is turned off.

Turn recording back on

Help

Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV003794621	Labcorp Genetics (formerly Invitae), Labcorp	criteria provided, single submitter (Invitae Variant Classification Sherloc (09022015))	Uncertain significance (Feb 20, 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

SCV003794621

Labcorp Genetics (formerly Invitae), Labcorp

criteria provided, single submitter

(Invitae Variant Classification Sherloc (09022015))

Uncertain significance
(Feb 20, 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 Labcorp Genetics (formerly Invitae), Labcorp, SCV003794621.2

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

Description

A copy number gain of the genomic region encompassing the full coding sequence of the LIFR gene has been identified. The boundaries of this event are unknown as they extend beyond the assayed region for this gene and therefore may encompass additional genes. As the precise location of this event is unknown, it may be in tandem or it may be located elsewhere in the genome. This variant has not been reported in the literature in individuals affected with LIFR-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

ClinVar

Relating variation to medicine