NM_001386795.1:c.-2+243_-2+256dupGTGTGTGTGTGTGT

Variant summary

Our verdict is Uncertain significance. The variant received 0 ACMG points: 0P and 0B.

The NM_001386795.1(DTNA):​c.-2+243_-2+256dupGTGTGTGTGTGTGT variant causes a intron change involving the alteration of a non-conserved nucleotide. The variant was absent in control chromosomes in GnomAD project. It is difficult to determine the true allele frequency of this variant because it is of type INS_BIG, and the frequency of such variant types in population databases may be underestimated and unreliable. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.

Frequency

Genomes: not found (cov: 26)

Consequence

DTNA
NM_001386795.1 intron

Scores

Not classified

Clinical Significance

Not reported in ClinVar

Conservation

PhyloP100: 0.161

Publications

0 publications found
Variant links:
Genes affected
DTNA (HGNC:3057): (dystrobrevin alpha) The protein encoded by this gene belongs to the dystrobrevin subfamily of the dystrophin family. This protein is a component of the dystrophin-associated protein complex (DPC), which consists of dystrophin and several integral and peripheral membrane proteins, including dystroglycans, sarcoglycans, syntrophins and alpha- and beta-dystrobrevin. The DPC localizes to the sarcolemma and its disruption is associated with various forms of muscular dystrophy. Mutations in this gene are associated with left ventricular noncompaction with congenital heart defects. Multiple alternatively spliced transcript variants encoding different isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
DTNA Gene-Disease associations (from GenCC):
  • left ventricular noncompaction 1
    Inheritance: AD Classification: LIMITED Submitted by: Labcorp Genetics (formerly Invitae), Ambry Genetics
  • Meniere disease
    Inheritance: AD Classification: LIMITED Submitted by: Ambry Genetics
  • congenital heart disease
    Inheritance: AD Classification: NO_KNOWN Submitted by: ClinGen
  • dilated cardiomyopathy
    Inheritance: AD Classification: NO_KNOWN Submitted by: ClinGen

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ACMG classification

Classification was made for transcript

Our verdict: Uncertain_significance. The variant received 0 ACMG points.

Variant Effect in Transcripts

ACMG analysis was done for transcript: NM_001386795.1. You can select a different transcript below to see updated ACMG assignments.

RefSeq Transcripts

Sel.
GeneTranscriptTagsHGVScHGVSpEffectExon RankProteinUniProt
DTNA
NM_001386795.1
MANE Select
c.-2+243_-2+256dupGTGTGTGTGTGTGT
intron
N/ANP_001373724.1A0A7P0TBH9
DTNA
NM_001386788.1
c.-2+243_-2+256dupGTGTGTGTGTGTGT
intron
N/ANP_001373717.1Q9Y4J8-17
DTNA
NM_001198938.2
c.-2+31096_-2+31109dupGTGTGTGTGTGTGT
intron
N/ANP_001185867.1Q9Y4J8-15

Ensembl Transcripts

Sel.
GeneTranscriptTagsHGVScHGVSpEffectExon RankProteinUniProt
DTNA
ENST00000444659.6
TSL:5 MANE Select
c.-2+230_-2+231insGTGTGTGTGTGTGT
intron
N/AENSP00000405819.2Q9Y4J8-17
DTNA
ENST00000598334.5
TSL:1
c.-2+31083_-2+31084insGTGTGTGTGTGTGT
intron
N/AENSP00000470152.1Q9Y4J8-15
DTNA
ENST00000399121.9
TSL:1
c.-2+31083_-2+31084insGTGTGTGTGTGTGT
intron
N/AENSP00000382072.5Q9Y4J8-14

Frequencies

GnomAD3 genomes
Cov.:
26
We have no GnomAD4 exomes data on this position. Probably position not covered by the project.
GnomAD4 genome
Cov.:
26
Alfa
AF:
0.00
Hom.:
32

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.9

Name
Calibrated prediction
Score
Prediction
PhyloP100
0.16

Splicing

Find out detailed SpliceAI scores and Pangolin per-transcript scores at spliceailookup.broadinstitute.org

Publications

Other links and lift over

dbSNP: rs113472325; hg19: chr18-32290639; API