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NM_000404.4(GLB1):c.65_75+1del AND not provided

Germline classification:
Pathogenic (1 submission)
Last evaluated:
Feb 25, 2020
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:
RCV001784268.4

Allele description [Variation Report for NM_000404.4(GLB1):c.65_75+1del]

NM_000404.4(GLB1):c.65_75+1del

Genes:
LOC129936434:ATAC-STARR-seq lymphoblastoid silent region 14182 [Gene]
GLB1:galactosidase beta 1 [Gene - OMIM - HGNC]
TMPPE:transmembrane protein with metallophosphoesterase domain [Gene - HGNC]
Variant type:
Deletion
Cytogenetic location:
3p22.3
Genomic location:
Preferred name:
NM_000404.4(GLB1):c.65_75+1del
Other names:
p.Arg22_Asn26delinsGLn
HGVS:
  • NC_000003.12:g.33097010_33097021del
  • NG_009005.1:g.5182_5193del
  • NM_000404.4:c.65_75+1delMANE SELECT
  • NM_001039770.3:c.-411_-400delMANE SELECT
  • NM_001135602.3:c.65_75+1del
  • NM_001136238.2:c.-307_-296del
  • NM_001317040.2:c.65_75+1del
  • NM_001393580.1:c.65_75+1del
  • NC_000003.11:g.33138502_33138513del
  • NM_000404.2:c.65_75+1del
  • NM_000404.2:c.65_75+1del12
Links:
dbSNP: rs1382394474
NCBI 1000 Genomes Browser:
rs1382394474
Molecular consequence:
  • NM_001039770.3:c.-411_-400del - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_001136238.2:c.-307_-296del - 5 prime UTR variant - [Sequence Ontology: SO:0001623]
  • NM_000404.4:c.65_75+1del - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_001135602.3:c.65_75+1del - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_001317040.2:c.65_75+1del - splice donor variant - [Sequence Ontology: SO:0001575]
  • NM_001393580.1:c.65_75+1del - splice donor variant - [Sequence Ontology: SO:0001575]

Condition(s)

Synonyms:
none provided
Identifiers:
MedGen: C3661900

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Assertion and evidence details

Help
Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002024820Revvity Omics, Revvity
criteria provided, single submitter

(ACMG Guidelines, 2015)		Pathogenic
(Feb 25, 2020) 		germlineclinical testing

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

Help

Summary from all submissions

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

Citations

PubMed

Standards and guidelines for the interpretation of sequence variants: a joint consensus recommendation of the American College of Medical Genetics and Genomics and the Association for Molecular Pathology.

Richards S, Aziz N, Bale S, Bick D, Das S, Gastier-Foster J, Grody WW, Hegde M, Lyon E, Spector E, Voelkerding K, Rehm HL; ACMG Laboratory Quality Assurance Committee..

Genet Med. 2015 May;17(5):405-24. doi: 10.1038/gim.2015.30. Epub 2015 Mar 5.

PubMed [citation]
PMID:
25741868
PMCID:
PMC4544753

Details of each submission

From Revvity Omics, Revvity, SCV002024820.3

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

Last Updated: Apr 6, 2024