Starting
Initialising…
0%
CYP21A2
Final classification
VUS
CYP21A2 c.1493G>T
CYP21A2

NM_000500.9:c.1493G>T is a synonymous substitution in the 3' untranslated region of CYP21A2 (c.*5G>T), with no predicted amino acid change (p.(=)).

Gene
CYP21A2
Transcript
N/A
HGVS · transcript:coding
NM_000500.9: c.1493G>T
Consequence
N/A
GRCh38
N/A
GRCh37
N/A
Basis gene-specific framework lacked a usable explicit final combination framework, so generic ACMG/AMP 2015 final-combination rules were applied as fallback; applied criteria: none; combination = no applied criteria, which maps to VUS.
gene-specific framework lacked a usable explicit final combination framework, so generic ACMG/AMP 2015 final-combination rules were applied as fallback; applied criteria: none; combination = no applied criteria, which maps to VUS.
Classification rationale
VUS
CYP21A2 c.1493G>T

NM_000500.9:c.1493G>T is a synonymous substitution in the 3' untranslated region of CYP21A2 (c.*5G>T), with no predicted amino acid change (p.(=)). CYP21A2 encodes 21-hydroxylase; loss-of-function variants cause autosomal recessive congenital adrenal hyperplasia (21-hydroxylase deficiency). This variant is absent from ClinVar; no clinical classification has been asserted by any submitter or expert panel. Population frequency data is unavailable for this 3' UTR position: gnomAD v2.1 and v4.1 returned no data, and gnomAD-Canada shows zero coverage, precluding PM2/BA1/BS1 assessment. No functional studies, case-control data, de novo reports, segregation analyses, or in silico predictions specific to this 3' UTR variant have been identified in the literature or public databases. PVS1 is not applicable as this is not a null variant (nonsense, frameshift, or canonical splice site change). PS1, PS5, PM5, PP2, BP1, and BP7 are not applicable as this variant is not a missense or coding-synonymous change.1 The variant cannot be classified at this time due to insufficient evidence across all applicable ACMG/AMP criteria. It remains a variant of uncertain significance (VUS) by default under generic ACMG/AMP 2015 rules, given the absence of both pathogenic and benign evidence.2

2 generic_acmg_combination_rules
Applied criteria · 0 met · select any tile
Met
Not met
Not assessed
N/A
Strength very strong supporting
Pathogenic evidence
PVS
PS
PM
PP
Benign evidence
BA
BS
BP
Rationale
Select a criterion.
Sources
Evidence used
    Gaps remaining
      Rule
      Research & evidence
      Population frequency
      Population frequency
      This variant is absent from gnomAD v4.1.
      This variant is absent from gnomAD v2.1.
      This variant is absent from gnomAD-Canada.
      ClinVar No data
      No ClinVar submissions were recorded for this variant.
      In silico No data
      No in-silico prediction was recorded for this variant.
      Functional No data
      No calibrated functional assay or RNA evidence was identified for this variant.
      OncoKB ↗
      COSMIC screenshot
      COSMIC
      Somatic evidence
      COSMIC
      This variant has not previously been reported in somatic cancers (COSMIC).
      Hotspots
      This variant does not lie in a statistically significant cancer hotspot.
      COSMIC ↗
      Sources & reference links
      3Sources
      ClinVar
      OncoKB
      COSMIC