chr1-112912805-T-TA
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Variant summary
Our verdict is Uncertain significance. Variant got 0 ACMG points: 0P and 0B.
The NM_003051.4(SLC16A1):c.*1085_*1086insT variant causes a 3 prime UTR change involving the alteration of a non-conserved nucleotide. Variant has been reported in ClinVar as Uncertain significance (★★).
Frequency
Genomes: 𝑓 0.0048 ( 1 hom., cov: 32)
Exomes 𝑓: 0.0 ( 0 hom. )
Failed GnomAD Quality Control
Consequence
SLC16A1
NM_003051.4 3_prime_UTR
NM_003051.4 3_prime_UTR
Scores
Not classified
Clinical Significance
Conservation
PhyloP100: -0.312
Genes affected
SLC16A1 (HGNC:10922): (solute carrier family 16 member 1) The protein encoded by this gene is a proton-linked monocarboxylate transporter that catalyzes the movement of many monocarboxylates, such as lactate and pyruvate, across the plasma membrane. Mutations in this gene are associated with erythrocyte lactate transporter defect. Alternatively spliced transcript variants have been found for this gene.[provided by RefSeq, Oct 2009]
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ACMG classification
Classification made for transcript
Verdict is Uncertain_significance. Variant got 0 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
SLC16A1 | NM_003051.4 | c.*1085_*1086insT | 3_prime_UTR_variant | 5/5 | ENST00000369626.8 | NP_003042.3 | ||
SLC16A1 | NM_001166496.2 | c.*1085_*1086insT | 3_prime_UTR_variant | 5/5 | NP_001159968.1 | |||
SLC16A1 | XM_047428789.1 | c.*1085_*1086insT | 3_prime_UTR_variant | 5/5 | XP_047284745.1 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
SLC16A1 | ENST00000369626.8 | c.*1085_*1086insT | 3_prime_UTR_variant | 5/5 | 1 | NM_003051.4 | ENSP00000358640 | P1 |
Frequencies
GnomAD3 genomes AF: 0.00 AC: 645AN: 136222Hom.: 1 Cov.: 32 FAILED QC
GnomAD3 genomes
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GnomAD4 exome Data not reliable, filtered out with message: AC0 AF: 0.00 AC: 0AN: 2Hom.: 0 Cov.: 0 AF XY: 0.00 AC XY: 0AN XY: 2
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GnomAD4 genome Data not reliable, filtered out with message: AS_VQSR AF: 0.00476 AC: 649AN: 136254Hom.: 1 Cov.: 32 AF XY: 0.00524 AC XY: 345AN XY: 65888
GnomAD4 genome
Data not reliable, filtered out with message: AS_VQSR
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ClinVar
Significance: Uncertain significance
Submissions summary: Uncertain:2
Revision: criteria provided, multiple submitters, no conflicts
LINK: link
Submissions by phenotype
not provided Uncertain:1
Uncertain significance, criteria provided, single submitter | not provided | Breakthrough Genomics, Breakthrough Genomics | - | - - |
Hyperinsulinism, Dominant Uncertain:1
Uncertain significance, criteria provided, single submitter | clinical testing | Illumina Laboratory Services, Illumina | Jun 14, 2016 | - - |
Computational scores
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SpliceAI score (max)
Details are displayed if max score is > 0.2
Find out detailed SpliceAI scores and Pangolin per-transcript scores at