14-96392262-G-GAGCGGC
Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 2P and 2B. PM2BP6_Moderate
The ENST00000267584.9(AK7):c.105+3_105+4insAGCGGC variant causes a splice region, intron change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000255 in 1,610,388 control chromosomes in the GnomAD database, including 1 homozygotes. Variant has been reported in ClinVar as Benign (★).
Frequency
Genomes: 𝑓 0.000053 ( 1 hom., cov: 32)
Exomes 𝑓: 0.000023 ( 0 hom. )
Consequence
AK7
ENST00000267584.9 splice_region, intron
ENST00000267584.9 splice_region, intron
Scores
Not classified
Clinical Significance
Conservation
PhyloP100: 2.43
Genes affected
AK7 (HGNC:20091): (adenylate kinase 7) This gene encodes a member of the adenylate kinase family of enzymes. The encoded enzyme is a phosphotransferase that catalyzes the reversible phosphorylation of adenine nucleotides. This enzyme plays a role in energy homeostasis of the cell. Alternative splicing results in multiple transcript variants. Mutations in the mouse gene are associated with primary ciliary dyskinesia. [provided by RefSeq, Apr 2017]
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ACMG classification
Classification made for transcript
Verdict is Uncertain_significance. Variant got 0 ACMG points.
PM2
Very rare variant in population databases, with high coverage;
BP6
Variant 14-96392262-G-GAGCGGC is Benign according to our data. Variant chr14-96392262-G-GAGCGGC is described in ClinVar as [Benign]. Clinvar id is 1987509.Status of the report is criteria_provided_single_submitter, 1 stars.
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
AK7 | ENST00000267584.9 | c.105+3_105+4insAGCGGC | splice_region_variant, intron_variant | Intron 1 of 17 | 1 | NM_152327.5 | ENSP00000267584.4 | |||
AK7 | ENST00000555570.1 | c.105+3_105+4insAGCGGC | splice_region_variant, intron_variant | Intron 1 of 1 | 2 | ENSP00000451068.1 | ||||
AK7 | ENST00000556643.1 | n.116+3_116+4insAGCGGC | splice_region_variant, intron_variant | Intron 1 of 2 | 2 |
Frequencies
GnomAD3 genomes AF: 0.0000525 AC: 8AN: 152246Hom.: 1 Cov.: 32
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GnomAD3 exomes AF: 0.000200 AC: 50AN: 250066Hom.: 0 AF XY: 0.000236 AC XY: 32AN XY: 135422
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GnomAD4 exome AF: 0.0000226 AC: 33AN: 1458142Hom.: 0 Cov.: 30 AF XY: 0.0000207 AC XY: 15AN XY: 725578
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GnomAD4 genome AF: 0.0000525 AC: 8AN: 152246Hom.: 1 Cov.: 32 AF XY: 0.0000403 AC XY: 3AN XY: 74374
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ClinVar
Significance: Benign
Submissions summary: Benign:1
Revision: criteria provided, single submitter
LINK: link
Submissions by phenotype
not provided Benign:1
Nov 19, 2024
Labcorp Genetics (formerly Invitae), Labcorp
Significance: Benign
Review Status: criteria provided, single submitter
Collection Method: clinical testing
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Computational scores
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Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at