NM_030762.3:c.1232C>A
Variant summary
Our verdict is Likely benign. Variant got -5 ACMG points: 0P and 5B. BP4BS2
The NM_030762.3(BHLHE41):c.1232C>A(p.Ala411Glu) variant causes a missense change involving the alteration of a conserved nucleotide. The variant allele was found at a frequency of 0.0000231 in 1,167,572 control chromosomes in the GnomAD database, with no homozygous occurrence. In-silico tool predicts a benign outcome for this variant. Variant has been reported in ClinVar as Uncertain significance (★).
Frequency
Consequence
NM_030762.3 missense
Scores
Clinical Significance
Conservation
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ACMG classification
Verdict is Likely_benign. Variant got -5 ACMG points.
Transcripts
RefSeq
Ensembl
Gene | Transcript | HGVSc | HGVSp | Effect | Exon rank | TSL | MANE | Protein | Appris | UniProt |
---|---|---|---|---|---|---|---|---|---|---|
BHLHE41 | ENST00000242728.5 | c.1232C>A | p.Ala411Glu | missense_variant | Exon 5 of 5 | 1 | NM_030762.3 | ENSP00000242728.4 | ||
SSPN | ENST00000538142.5 | c.-31+131G>T | intron_variant | Intron 1 of 2 | 4 | ENSP00000445360.1 | ||||
SSPN | ENST00000534829.5 | n.101+131G>T | intron_variant | Intron 1 of 3 | 3 |
Frequencies
GnomAD3 genomes AF: 0.00000673 AC: 1AN: 148510Hom.: 0 Cov.: 30
GnomAD4 exome AF: 0.0000255 AC: 26AN: 1019062Hom.: 0 Cov.: 30 AF XY: 0.0000312 AC XY: 15AN XY: 480972
GnomAD4 genome AF: 0.00000673 AC: 1AN: 148510Hom.: 0 Cov.: 30 AF XY: 0.0000138 AC XY: 1AN XY: 72392
ClinVar
Submissions by phenotype
not specified Uncertain:1
The c.1232C>A (p.A411E) alteration is located in exon 5 (coding exon 5) of the BHLHE41 gene. This alteration results from a C to A substitution at nucleotide position 1232, causing the alanine (A) at amino acid position 411 to be replaced by a glutamic acid (E). Based on insufficient or conflicting evidence, the clinical significance of this alteration remains unclear. -
Computational scores
Source:
Splicing
Find out detailed SpliceAI scores and Pangolin per-transcript scores at