15-51227672-C-CAATAAATAAATAAATAAATAAATAAATAATAAATAAATAAATAAATAAATA

Variant names:

• chr15-51227672-C-CAATAAATAAATAAATAAATAAATAAATAATAAATAAATAAATAAATAAATA
• rs60271534
• NM_000103.4:c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT

Variant summary

Our verdict is Uncertain significance. The variant received 0 ACMG points: 0P and 0B.

The NM_000103.4(CYP19A1):​c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT variant causes a intron change involving the alteration of a non-conserved nucleotide. It is difficult to determine the true allele frequency of this variant because it is of type INS_BIG, and the frequency of such variant types in population databases may be underestimated and unreliable. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.

• Frequency: Genomes: not found (cov: 0)
• Consequence: CYP19A1 NM_000103.4 intron
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: 0.538
• Publications: 13 publications found

Genes affected

CYP19A1 (HGNC:2594): (cytochrome P450 family 19 subfamily A member 1) This gene encodes a member of the cytochrome P450 superfamily of enzymes. The cytochrome P450 proteins are monooxygenases which catalyze many reactions involved in drug metabolism and synthesis of cholesterol, steroids and other lipids. This protein localizes to the endoplasmic reticulum and catalyzes the last steps of estrogen biosynthesis. Mutations in this gene can result in either increased or decreased aromatase activity; the associated phenotypes suggest that estrogen functions both as a sex steroid hormone and in growth or differentiation. Alternative promoter use and alternative splicing results in multiple transcript variants that have different tissue specificities. [provided by RefSeq, Dec 2016]

MIR4713HG (HGNC:53124): (MIR4713 host gene)

ACMG classification

Our verdict: Uncertain_significance. The variant received 0 ACMG points.

Variant Effect in Transcripts

ACMG analysis was done for transcript: NM_000103.4. You can select a different transcript below to see updated ACMG assignments.

RefSeq Transcripts

Sel.	Gene	Transcript	Tags	HGVSc	HGVSp	Effect	Exon Rank	Protein	UniProt
	CYP19A1	NM_000103.4	MANE Select	c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT		intron	N/A	NP_000094.2
	CYP19A1	NM_001347248.1		c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT		intron	N/A	NP_001334177.1	P11511-1
	CYP19A1	NM_001347249.2		c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT		intron	N/A	NP_001334178.1	P11511-1

Ensembl Transcripts

Sel.	Gene	Transcript	Tags	HGVSc	HGVSp	Effect	Exon Rank	Protein	UniProt
	CYP19A1	ENST00000396402.6	TSL:1 MANE Select	c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT		intron	N/A	ENSP00000379683.1	P11511-1
	CYP19A1	ENST00000559878.5	TSL:1	c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT		intron	N/A	ENSP00000453149.1	P11511-1
	CYP19A1	ENST00000405913.7	TSL:1	c.451+106_451+107insTATTTATTTATTTATTTATTTATTATTTATTTATTTATTTATTTATTTATT		intron	N/A	ENSP00000383930.3	P11511-2

Frequencies

GnomAD3 genomes Cov.: 0

We have no GnomAD4 exomes data on this position. Probably position not covered by the project.

GnomAD4 genome Cov.: 0

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.9

Name	Calibrated prediction	Score	Prediction
PhyloP100		0.54

Splicing

Find out detailed SpliceAI scores and Pangolin per-transcript scores at spliceailookup.broadinstitute.org

Other links and lift over

dbSNP: rs60271534; hg19: chr15-51519869;