rs1210344444
Variant names:
Your query was ambiguous. Multiple possible variants found:
Variant summary
Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BP4_Strong
The NM_001137610.3(FAM86B2):āc.651C>Gā(p.Asp217Glu) variant causes a missense change involving the alteration of a non-conserved nucleotide. In-silico tool predicts a benign outcome for this variant. 14/21 in silico tools predict a benign outcome for this variant. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.
Frequency
Genomes: not found (cov: 19)
Exomes š: 8.8e-7 ( 0 hom. )
Failed GnomAD Quality Control
Consequence
FAM86B2
NM_001137610.3 missense
NM_001137610.3 missense
Scores
1
18
Clinical Significance
Not reported in ClinVar
Conservation
PhyloP100: -0.250
Genes affected
FAM86B2 (HGNC:32222): (family with sequence similarity 86 member B2) Predicted to enable methyltransferase activity. Predicted to be involved in methylation. Part of protein-containing complex. [provided by Alliance of Genome Resources, Apr 2022]
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ACMG classification
Classification made for transcript
Verdict is Likely_benign. Variant got -4 ACMG points.
BP4
Computational evidence support a benign effect (MetaRNN=0.044837862).
Transcripts
RefSeq
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | MANE | Protein | UniProt |
---|---|---|---|---|---|---|---|---|
FAM86B2 | NM_001137610.3 | c.651C>G | p.Asp217Glu | missense_variant | Exon 6 of 8 | ENST00000262365.9 | NP_001131082.1 | |
FAM86B2 | NR_148876.2 | n.431+257C>G | intron_variant | Intron 4 of 5 | ||||
FAM86B2 | NR_148877.2 | n.350+257C>G | intron_variant | Intron 3 of 4 | ||||
FAM86B2 | NR_148878.2 | n.631+257C>G | intron_variant | Intron 5 of 6 |
Ensembl
Frequencies
GnomAD3 genomes Cov.: 19
GnomAD3 genomes
Cov.:
19
GnomAD3 exomes AF: 0.00000838 AC: 1AN: 119302Hom.: 0 AF XY: 0.0000157 AC XY: 1AN XY: 63532
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GnomAD4 exome Data not reliable, filtered out with message: AS_VQSR AF: 8.75e-7 AC: 1AN: 1142590Hom.: 0 Cov.: 28 AF XY: 0.00000176 AC XY: 1AN XY: 569468
GnomAD4 exome
Data not reliable, filtered out with message: AS_VQSR
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28
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GnomAD4 genome Cov.: 19
GnomAD4 genome
Cov.:
19
ClinVar
Not reported inComputational scores
Source:
Name
Calibrated prediction
Score
Prediction
AlphaMissense
Benign
BayesDel_addAF
Benign
T
BayesDel_noAF
Benign
CADD
Benign
DANN
Benign
DEOGEN2
Benign
T;.
Eigen
Benign
Eigen_PC
Benign
FATHMM_MKL
Benign
N
LIST_S2
Benign
T;T
M_CAP
Benign
T
MetaRNN
Benign
T;T
MetaSVM
Benign
T
MutationAssessor
Benign
N;.
PrimateAI
Uncertain
T
PROVEAN
Benign
N;N
REVEL
Benign
Sift
Benign
T;T
Sift4G
Benign
T;T
Polyphen
B;.
Vest4
MutPred
Gain of disorder (P = 0.1738);.;
MVP
MPC
ClinPred
T
GERP RS
Varity_R
gMVP
Splicing
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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