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NM_001130144.3(LTBP3):c.3009G>A (p.Glu1003=) AND Inborn genetic diseases

Germline classification:
Likely benign (1 submission)
Last evaluated:
Nov 17, 2019
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:
RCV002434184.9

Allele description [Variation Report for NM_001130144.3(LTBP3):c.3009G>A (p.Glu1003=)]

NM_001130144.3(LTBP3):c.3009G>A (p.Glu1003=)

Genes:
LOC121832793:Sharpr-MPRA regulatory region 4001 [Gene]
LTBP3:latent transforming growth factor beta binding protein 3 [Gene - OMIM - HGNC]
Variant type:
single nucleotide variant
Cytogenetic location:
11q13.1
Genomic location:
Preferred name:
NM_001130144.3(LTBP3):c.3009G>A (p.Glu1003=)
HGVS:
  • NC_000011.10:g.65540583C>T
  • NG_016437.1:g.22646G>A
  • NG_047172.1:g.20519C>T
  • NG_075883.1:g.66C>T
  • NM_001130144.3:c.3009G>AMANE SELECT
  • NM_001164266.1:c.2658G>A
  • NM_021070.4:c.3009G>A
  • NP_001123616.1:p.Glu1003=
  • NP_001123616.1:p.Glu1003=
  • NP_001157738.1:p.Glu886=
  • NP_066548.2:p.Glu1003=
  • NC_000011.9:g.65308054C>T
  • NC_000011.9:g.65308054C>T
  • NM_001130144.2:c.3009G>A
Links:
dbSNP: rs142872641
NCBI 1000 Genomes Browser:
rs142872641
Molecular consequence:
  • NM_001130144.3:c.3009G>A - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_001164266.1:c.2658G>A - synonymous variant - [Sequence Ontology: SO:0001819]
  • NM_021070.4:c.3009G>A - synonymous variant - [Sequence Ontology: SO:0001819]

Condition(s)

Name:
Inborn genetic diseases
Identifiers:
MeSH: D030342; MedGen: C0950123

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Assertion and evidence details

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Submission AccessionSubmitterReview Status
(Assertion method)		Clinical Significance
(Last evaluated)		OriginMethodCitations
SCV002754172Ambry Genetics
criteria provided, single submitter

(Ambry Variant Classification Scheme 2023)		Likely benign
(Nov 17, 2019) 		germlineclinical testing

Citation Link

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Summary from all submissions

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

Details of each submission

From Ambry Genetics, SCV002754172.2

#EthnicityIndividualsChromosomes TestedFamily HistoryMethodCitations
1not providednot providednot providednot providedclinical testingnot provided

Description

This alteration is classified as likely benign based on a combination of the following: seen in unaffected individuals, population frequency, intact protein function, lack of segregation with disease, co-occurrence, RNA analysis, in silico models, amino acid conservation, lack of disease association in case-control studies, and/or the mechanism of disease or impacted region is inconsistent with a known cause of pathogenicity.

#SampleMethodObservation
OriginAffectedNumber testedTissuePurposeMethodIndividualsAllele frequencyFamiliesCo-occurrences
1germlineunknownnot providednot providednot providednot providednot providednot providednot provided

Last Updated: Nov 24, 2024