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GRCh37/hg19 2q24.2-31.1(chr2:160347642-174075851)x1 AND 2q24 microdeletion syndrome

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Feb 2, 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:
RCV002271993.1

Allele description [Variation Report for GRCh37/hg19 2q24.2-31.1(chr2:160347642-174075851)x1]

GRCh37/hg19 2q24.2-31.1(chr2:160347642-174075851)x1

Genes:
  • ABCB11:ATP binding cassette subfamily B member 11 [Gene - OMIM - HGNC]
  • BBS5:Bardet-Biedl syndrome 5 [Gene - OMIM - HGNC]
  • CD302:CD302 molecule [Gene - OMIM - HGNC]
  • DCAF17:DDB1 and CUL4 associated factor 17 [Gene - OMIM - HGNC]
  • FASTKD1:FAST kinase domains 1 [Gene - OMIM - HGNC]
  • LRP2:LDL receptor related protein 2 [Gene - OMIM - HGNC]
  • LY75-CD302:LY75-CD302 readthrough [Gene - HGNC]
  • RBMS1:RNA binding motif single stranded interacting protein 1 [Gene - OMIM - HGNC]
  • RAPGEF4:Rap guanine nucleotide exchange factor 4 [Gene - OMIM - HGNC]
  • SPC25:SPC25 component of NDC80 kinetochore complex [Gene - OMIM - HGNC]
  • SP5:Sp5 transcription factor [Gene - OMIM - HGNC]
  • TBR1:T-box brain transcription factor 1 [Gene - OMIM - HGNC]
  • TANK:TRAF family member associated NFKB activator [Gene - OMIM - HGNC]
  • B3GALT1:beta-1,3-galactosyltransferase 1 [Gene - OMIM - HGNC]
  • BAZ2B:bromodomain adjacent to zinc finger domain 2B [Gene - OMIM - HGNC]
  • CERS6:ceramide synthase 6 [Gene - OMIM - HGNC]
  • CFAP210:cilia and flagella associated protein 210 [Gene - HGNC]
  • COBLL1:cordon-bleu WH2 repeat protein like 1 [Gene - OMIM - HGNC]
  • CSRNP3:cysteine and serine rich nuclear protein 3 [Gene - HGNC]
  • CYBRD1:cytochrome b reductase 1 [Gene - OMIM - HGNC]
  • DHRS9:dehydrogenase/reductase 9 [Gene - OMIM - HGNC]
  • DPP4:dipeptidyl peptidase 4 [Gene - OMIM - HGNC]
  • DLX1:distal-less homeobox 1 [Gene - OMIM - HGNC]
  • DLX2:distal-less homeobox 2 [Gene - OMIM - HGNC]
  • DYNC1I2:dynein cytoplasmic 1 intermediate chain 2 [Gene - OMIM - HGNC]
  • FAP:fibroblast activation protein alpha [Gene - OMIM - HGNC]
  • FIGN:fidgetin, microtubule severing factor [Gene - OMIM - HGNC]
  • GCG:glucagon [Gene - OMIM - HGNC]
  • G6PC2:glucose-6-phosphatase catalytic subunit 2 [Gene - OMIM - HGNC]
  • GAD1:glutamate decarboxylase 1 [Gene - OMIM - HGNC]
  • ERICH2:glutamate rich 2 [Gene - HGNC]
  • GORASP2:golgi reassembly stacking protein 2 [Gene - OMIM - HGNC]
  • GCA:grancalcin [Gene - OMIM - HGNC]
  • GRB14:growth factor receptor bound protein 14 [Gene - OMIM - HGNC]
  • HAT1:histone acetyltransferase 1 [Gene - OMIM - HGNC]
  • ITGA6:integrin subunit alpha 6 [Gene - OMIM - HGNC]
  • ITGB6:integrin subunit beta 6 [Gene - OMIM - HGNC]
  • IFIH1:interferon induced with helicase C domain 1 [Gene - OMIM - HGNC]
  • KLHL23:kelch like family member 23 [Gene - HGNC]
  • KLHL41:kelch like family member 41 [Gene - OMIM - HGNC]
  • LY75:lymphocyte antigen 75 [Gene - OMIM - HGNC]
  • MARCHF7:membrane associated ring-CH-type finger 7 [Gene - OMIM - HGNC]
  • METAP1D:methionyl aminopeptidase type 1D, mitochondrial [Gene - OMIM - HGNC]
  • METTL5:methyltransferase 5, N6-adenosine [Gene - OMIM - HGNC]
  • METTL8:methyltransferase 8, methylcytidine [Gene - OMIM - HGNC]
  • MAP3K20:mitogen-activated protein kinase kinase kinase 20 [Gene - OMIM - HGNC]
  • MYO3B:myosin IIIB [Gene - OMIM - HGNC]
  • NOSTRIN:nitric oxide synthase trafficking [Gene - OMIM - HGNC]
  • PPIG:peptidylprolyl isomerase G [Gene - OMIM - HGNC]
  • PHOSPHO2:phosphatase, orphan 2 [Gene - HGNC]
  • PLA2R1:phospholipase A2 receptor 1 [Gene - OMIM - HGNC]
  • GALNT3:polypeptide N-acetylgalactosaminyltransferase 3 [Gene - OMIM - HGNC]
  • KCNH7:potassium voltage-gated channel subfamily H member 7 [Gene - OMIM - HGNC]
  • PSMD14:proteasome 26S subunit, non-ATPase 14 [Gene - OMIM - HGNC]
  • PDK1:pyruvate dehydrogenase kinase 1 [Gene - OMIM - HGNC]
  • STK39:serine/threonine kinase 39 [Gene - OMIM - HGNC]
  • SSB:small RNA binding exonuclease protection factor La [Gene - OMIM - HGNC]
  • SCN1A:sodium voltage-gated channel alpha subunit 1 [Gene - OMIM - HGNC]
  • SCN2A:sodium voltage-gated channel alpha subunit 2 [Gene - OMIM - HGNC]
  • SCN3A:sodium voltage-gated channel alpha subunit 3 [Gene - OMIM - HGNC]
  • SCN7A:sodium voltage-gated channel alpha subunit 7 [Gene - OMIM - HGNC]
  • SCN9A:sodium voltage-gated channel alpha subunit 9 [Gene - OMIM - HGNC]
  • SLC25A12:solute carrier family 25 member 12 [Gene - OMIM - HGNC]
  • SLC38A11:solute carrier family 38 member 11 [Gene - OMIM - HGNC]
  • SLC4A10:solute carrier family 4 member 10 [Gene - OMIM - HGNC]
  • TTC21B:tetratricopeptide repeat domain 21B [Gene - OMIM - HGNC]
  • TLK1:tousled like kinase 1 [Gene - OMIM - HGNC]
  • UBR3:ubiquitin protein ligase E3 component n-recognin 3 [Gene - OMIM - HGNC]
  • XIRP2:xin actin binding repeat containing 2 [Gene - OMIM - HGNC]
Variant type:
copy number loss
Cytogenetic location:
2q24.2-31.1
Genomic location:
Chr2: 160347642 - 174075851 (on Assembly GRCh37)
Preferred name:
GRCh37/hg19 2q24.2-31.1(chr2:160347642-174075851)x1
HGVS:
NC_000002.11:g.(?_160347642)_(174075851_?)del

Condition(s)

Name:
2q24 microdeletion syndrome
Synonyms:
Chromosome 2, monosomy 2q24; Monosomy 2q24; Deletion 2q24
Identifiers:
MONDO: MONDO:0015566; MedGen: C2931816

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Assertion and evidence details

Submission AccessionSubmitterReview Status
(Assertion method)
Clinical Significance
(Last evaluated)
OriginMethodCitations
SCV002074131Centro Nacional de Genética Medica "Dr. Eduardo E. Castilla", Administración Nacional de Laboratorios e Institutos de Salud
criteria provided, single submitter

(ACMG/ClinGen CNV Guidelines, 2019)
Pathogenic
(Feb 2, 2022)
germlineclinical testing

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

Summary from all submissions

EthnicityOriginAffectedIndividualsFamiliesChromosomes testedNumber TestedFamily historyMethod
not providedgermlineyesnot providednot providednot providednot providednot providedclinical testing

Citations

PubMed

Technical standards for the interpretation and reporting of constitutional copy-number variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics (ACMG) and the Clinical Genome Resource (ClinGen).

Riggs ER, Andersen EF, Cherry AM, Kantarci S, Kearney H, Patel A, Raca G, Ritter DI, South ST, Thorland EC, Pineda-Alvarez D, Aradhya S, Martin CL.

Genet Med. 2020 Feb;22(2):245-257. doi: 10.1038/s41436-019-0686-8. Epub 2019 Nov 6. Erratum in: Genet Med. 2021 Nov;23(11):2230.

PubMed [citation]
PMID:
31690835
PMCID:
PMC7313390

Details of each submission

From Centro Nacional de Genética Medica "Dr. Eduardo E. Castilla", Administración Nacional de Laboratorios e Institutos de Salud, SCV002074131.1

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testing PubMed (1)
#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineyesnot providedbloodnot providednot providednot providednot providednot provided

Last Updated: Mar 26, 2023