rs1527014
Variant summary
Our verdict is Benign. Variant got -12 ACMG points: 0P and 12B. BP4_StrongBA1
The NM_001170798.1(SLC15A5):c.812C>T(p.Pro271Leu) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.961 in 1,537,704 control chromosomes in the GnomAD database, including 710,541 homozygotes. In-silico tool predicts a benign outcome for this variant. 14/18 in silico tools predict a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar. Another nucleotide change resulting in same amino acid change has been previously reported as Likely benignin UniProt.
Frequency
Consequence
NM_001170798.1 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Benign. Variant got -12 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
SLC15A5 | NM_001170798.1 | c.812C>T | p.Pro271Leu | missense_variant | 4/9 | ENST00000344941.3 | NP_001164269.1 | |
LOC101928362 | XR_001749028.1 | n.334-88G>A | intron_variant, non_coding_transcript_variant |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
SLC15A5 | ENST00000344941.3 | c.812C>T | p.Pro271Leu | missense_variant | 4/9 | 5 | NM_001170798.1 | ENSP00000340402 | P1 |
Frequencies
GnomAD3 genomes AF: 0.941 AC: 143275AN: 152188Hom.: 67559 Cov.: 33
GnomAD3 exomes AF: 0.959 AC: 137981AN: 143936Hom.: 66191 AF XY: 0.963 AC XY: 73760AN XY: 76606
GnomAD4 exome AF: 0.963 AC: 1334468AN: 1385398Hom.: 642929 Cov.: 68 AF XY: 0.964 AC XY: 659183AN XY: 683594
GnomAD4 genome AF: 0.941 AC: 143383AN: 152306Hom.: 67612 Cov.: 33 AF XY: 0.941 AC XY: 70108AN XY: 74476
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at