rs28358278

Positions:

chrM-10400-C-T

Variant summary

Our verdict is Benign. Variant got -8 ACMG points: 0P and 8B. BA1

No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.

Frequency

Mitomap GenBank:

𝑓 0.20 ( AC: 12419 )

Consequence

ND3
synonymous

Scores

Clinical Significance

Not reported in ClinVar

No linked disesase in Mitomap

Conservation

PhyloP100: -8.49

Variant links:

Genes affected

ND3 (HGNC:):

ND3 links:

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ACMG classification

Classification made for transcript

Verdict is Benign. Variant got -8 ACMG points.

BA1

High frequency in mitomap database: 0.2031

Transcripts

RefSeq

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons
ND3	unassigned_transcript_4809 use as main transcript	c.342C>T	p.Thr114Thr	synonymous_variant	1/1
TRNR	unassigned_transcript_4810 use as main transcript	c.-5C>T		upstream_gene_variant
	use as main transcript

Ensembl

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons	TSL	MANE	Protein	Appris	UniProt

Frequencies

GnomAD4 exome

Cov.:

We have no GnomAD4 genomes data on this position. Probably position not covered by the project.

Mitomap GenBank

AF:

0.20

AC:

12419

Gnomad homoplasmic

AF:

0.053

AC:

2974

AN:

56379

Gnomad heteroplasmic

AF:

0.000018

AC:

AN:

56379

Alfa

AF:

0.0281

Hom.:

126

Mitomap

No disease associated.

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Name

Calibrated prediction

Score

Prediction

Splicing

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

Publications

LitVar

Below is the list of publications found by LitVar. It may be empty.