10-46461739-A-A

Position:

• chr10-46461739-A-A

Variant summary

Our verdict is Likely benign. Variant got -2 ACMG points: 0P and 2B. BP6_Moderate

The NM_005972.6(NPY4R):​c. variant causes a exon region change. Variant has been reported in ClinVar as Benign (★).

• Frequency: Genomes: not found (cov: 1)
• Consequence: NPY4R NM_005972.6 exon_region
• Clinical Significance: Benign criteria provided, single submitter B:1
• Conservation: PhyloP100: 3.81

Genes affected

NPY4R (HGNC:9329): (neuropeptide Y receptor Y4) Enables pancreatic polypeptide receptor activity and peptide hormone binding activity. Involved in G protein-coupled receptor signaling pathway. Located in membrane. [provided by Alliance of Genome Resources, Apr 2022]

ENSG00000285402 (HGNC:):

ACMG classification

Verdict is Likely_benign. Variant got -2 ACMG points.

• BP6: Variant 10-46461739-A-A is Benign according to our data. Variant chr10-46461739-A-A is described in ClinVar as [Benign]. Clinvar id is 768360.Status of the report is criteria_provided_single_submitter, 1 stars.

Transcripts

RefSeq

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons	MANE	Protein	UniProt
NPY4R	NM_005972.6	c.		exon_region	3/3	ENST00000374312.5	NP_005963.4

Ensembl

Gene	Transcript	HGVSc	HGVSp	Effect	#exon/exons	TSL	MANE	Protein	Appris	UniProt
NPY4R	ENST00000374312.5	c.		exon_region	3/3	1	NM_005972.6	ENSP00000363431.1
NPY4R	ENST00000612632.3	c.		exon_region	2/2	1		ENSP00000480883.1
ENSG00000285402	ENST00000616785.1	n.		intron_variant		2

Frequencies

GnomAD3 genomes Cov.: 1

GnomAD4 exome Cov.: 3

GnomAD4 genome Cov.: 1

ClinVar

Significance: Benign

Submissions summary: Benign:1

Revision: criteria provided, single submitter

Submissions by phenotype

not provided Benign:1

Benign, criteria provided, single submitter

clinical testing

Labcorp Genetics (formerly Invitae), Labcorp

May 14, 2018

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Computational scores

Source: dbNSFP v4.3

Splicing

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

Publications

No publications associated with this variant yet.

Other links and lift over

hg19: chr10-47087680;