11-65599588-C-T
Variant summary
Our verdict is Likely benign. Variant got -6 ACMG points: 0P and 6B. BP4_ModerateBS2
The NM_002419.4(MAP3K11):c.2012G>A(p.Arg671His) variant causes a missense change involving the alteration of a non-conserved nucleotide. The variant allele was found at a frequency of 0.0000283 in 1,519,242 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. 13/21 in silico tools predict a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_002419.4 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -6 ACMG points.
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | MANE | UniProt |
---|---|---|---|---|---|---|---|
MAP3K11 | NM_002419.4 | c.2012G>A | p.Arg671His | missense_variant | 9/10 | ENST00000309100.8 | |
MAP3K11 | XM_047426962.1 | c.*91G>A | 3_prime_UTR_variant | 10/10 |
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | #exon/exons | TSL | MANE | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|
MAP3K11 | ENST00000309100.8 | c.2012G>A | p.Arg671His | missense_variant | 9/10 | 1 | NM_002419.4 | P1 |
Frequencies
GnomAD3 genomes AF: 0.0000395 AC: 6AN: 152056Hom.: 0 Cov.: 32
GnomAD3 exomes AF: 0.0000417 AC: 6AN: 143734Hom.: 0 AF XY: 0.0000489 AC XY: 4AN XY: 81864
GnomAD4 exome AF: 0.0000271 AC: 37AN: 1367186Hom.: 0 Cov.: 34 AF XY: 0.0000296 AC XY: 20AN XY: 675512
GnomAD4 genome AF: 0.0000395 AC: 6AN: 152056Hom.: 0 Cov.: 32 AF XY: 0.0000539 AC XY: 4AN XY: 74258
ClinVar
Not reported inComputational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at