chr17-61680480-C-CTTTCTTTTTTT

Position:

• chr17-61680480-C-CTTTCTTTTTTT

Variant summary

Our verdict is Likely benign. Variant got -4 ACMG points: 0P and 4B. BS2

The ENST00000259008.7(BRIP1):​c.*2815_*2816insAAAAAAAGAAA variant causes a 3 prime UTR change involving the alteration of a non-conserved nucleotide. No clinical diagnostic laboratories have submitted clinical-significance assessments for this variant to ClinVar.

• Frequency: Genomes: 𝑓 0.00015 (3 hom., cov: 0)
• Consequence: BRIP1 ENST00000259008.7 3_prime_UTR
• Clinical Significance: Not reported in ClinVar
• Conservation: PhyloP100: 0.0550

Genes affected

BRIP1 (HGNC:20473): (BRCA1 interacting helicase 1) The protein encoded by this gene is a member of the RecQ DEAH helicase family and interacts with the BRCT repeats of breast cancer, type 1 (BRCA1). The bound complex is important in the normal double-strand break repair function of breast cancer, type 1 (BRCA1). This gene may be a target of germline cancer-inducing mutations. [provided by RefSeq, Jul 2008]

ACMG classification

Verdict is Likely_benign. Variant got -4 ACMG points.

• BS2: High Homozygotes in GnomAd4 at 3 AD,AR gene

Transcripts

RefSeq

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons	MANE	Protein	UniProt
BRIP1	NM_032043.3	c.*2815_*2816insAAAAAAAGAAA		3_prime_UTR_variant	20/20	ENST00000259008.7	NP_114432.2

Ensembl

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons	TSL	MANE	Protein	Appris	UniProt
BRIP1	ENST00000259008.7	c.*2815_*2816insAAAAAAAGAAA		3_prime_UTR_variant	20/20	1	NM_032043.3	ENSP00000259008	P2
BRIP1	ENST00000682755.1	c.*2815_*2816insAAAAAAAGAAA		3_prime_UTR_variant	18/18			ENSP00000507660

Frequencies

GnomAD3 genomes AF: 0.000153 AC: 19 AN: 124086 Hom.: 3 Cov.: 0

Gnomad AFR AF: 0.0000631

Gnomad AMI AF: 0.00

Gnomad AMR AF: 0.000176

Gnomad ASJ AF: 0.00

Gnomad EAS AF: 0.000241

Gnomad SAS AF: 0.00101

Gnomad FIN AF: 0.000374

Gnomad MID AF: 0.00

Gnomad NFE AF: 0.000130

Gnomad OTH AF: 0.00

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

GnomAD4 genome AF: 0.000153 AC: 19 AN: 124086 Hom.: 3 Cov.: 0 AF XY: 0.000222 AC XY: 13 AN XY: 58542

Gnomad4 AFR AF: 0.0000631

Gnomad4 AMR AF: 0.000176

Gnomad4 ASJ AF: 0.00

Gnomad4 EAS AF: 0.000241

Gnomad4 SAS AF: 0.00101

Gnomad4 FIN AF: 0.000374

Gnomad4 NFE AF: 0.000130

Gnomad4 OTH AF: 0.00

ClinVar

Not reported in ClinVar

Computational scores

Source: dbNSFP v4.3

Splicing

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

Publications

LitVar

Other links and lift over

dbSNP: rs1555571892; hg19: chr17-59757841;