GRCh37/hg19 2q31.1-31.2(chr2:176794846-178494259) AND not provided

Germline classification:: Pathogenic (1 submission)
Last evaluated:: Nov 1, 2018
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:: RCV000767781.1

Allele description [Variation Report for GRCh37/hg19 2q31.1-31.2(chr2:176794846-178494259)]

GRCh37/hg19 2q31.1-31.2(chr2:176794846-178494259)

Genes:

NFE2L2:NFE2 like bZIP transcription factor 2 [Gene - OMIM - HGNC]
AGPS:alkylglycerone phosphate synthase [Gene - OMIM - HGNC]
EVX2:even-skipped homeobox 2 [Gene - OMIM - HGNC]
HNRNPA3:heterogeneous nuclear ribonucleoprotein A3 [Gene - OMIM - HGNC]
HOXD10:homeobox D10 [Gene - OMIM - HGNC]
HOXD11:homeobox D11 [Gene - OMIM - HGNC]
HOXD12:homeobox D12 [Gene - OMIM - HGNC]
HOXD13:homeobox D13 [Gene - OMIM - HGNC]
HOXD1:homeobox D1 [Gene - OMIM - HGNC]
HOXD3:homeobox D3 [Gene - OMIM - HGNC]
HOXD4:homeobox D4 [Gene - OMIM - HGNC]
HOXD8:homeobox D8 [Gene - OMIM - HGNC]
HOXD9:homeobox D9 [Gene - OMIM - HGNC]
LNPK:lunapark, ER junction formation factor [Gene - OMIM - HGNC]
MTX2:metaxin 2 [Gene - OMIM - HGNC]
MIR10B:microRNA 10b [Gene - OMIM - HGNC]
PDE11A:phosphodiesterase 11A [Gene - OMIM - HGNC]
TTC30A:tetratricopeptide repeat domain 30A [Gene - HGNC]
TTC30B:tetratricopeptide repeat domain 30B [Gene - HGNC]

Variant type:

copy number loss

Cytogenetic location:

2q31.1-31.2

Genomic location:

Chr2: 176794846 - 178494259 (on Assembly GRCh37)

Preferred name:

GRCh37/hg19 2q31.1-31.2(chr2:176794846-178494259)

HGVS:

NC_000002.11:g.(?_176794846)_(178494259_?)del

Observations:

Condition(s)

Synonyms:: none provided
Identifiers:: MedGen: CN517202

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LOC127886511 [Homo sapiens]
LOC127886511 [Homo sapiens]
Gene ID:127886511

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Submission Accession	Submitter	Review Status (Assertion method)	Clinical Significance (Last evaluated)	Origin	Method	Citations
SCV000898403	Baylor Genetics	criteria provided, single submitter (ACMG CNV Guidelines, 2011)	Pathogenic (Nov 1, 2018)	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

SCV000898403

Baylor Genetics

criteria provided, single submitter

(ACMG CNV Guidelines, 2011)

Pathogenic
(Nov 1, 2018)

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	yes	1	1	not provided	not provided	not provided	clinical testing

Citations

PubMed

American College of Medical Genetics standards and guidelines for interpretation and reporting of postnatal constitutional copy number variants.

Kearney HM, Thorland EC, Brown KK, Quintero-Rivera F, South ST; Working Group of the American College of Medical Genetics Laboratory Quality Assurance Committee..

Genet Med. 2011 Jul;13(7):680-5. doi: 10.1097/GIM.0b013e3182217a3a.

PubMed [citation]

PMID:: 21681106

Details of each submission

From Baylor Genetics, SCV000898403.1

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

Description

Deletions involving this region have been previously reported in patients with developmental delay, microcephaly, short stature, hypotonia, dysmorphic features and various limb defects [PMID: 21068127]

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

Last Updated: Apr 23, 2022

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