VCV002680346.1 - ClinVar

NM_001370658.1(BTD):c.799del (p.Ala267fs)

Germline

Classification

The aggregate germline classification for this variant, typically for a monogenic or Mendelian disorder as in the ACMG/AMP guidelines, or for response to a drug. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the aggregate classification.

(1)

Stars represent the aggregate review status, or the level of review supporting the aggregate germline classification for this VCV record. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status. The number of submissions which contribute to this review status is shown in parentheses.

Likely pathogenic

criteria provided, single submitter

Somatic

No data submitted for somatic clinical impact

Somatic

No data submitted for oncogenicity

Variant Details

Identifiers

NM_001370658.1(BTD):c.799del (p.Ala267fs)

Variation ID: 2680346 Accession: VCV002680346.1

Type and length

Deletion, 1 bp

Location

Cytogenetic: 3p25.1 3: 15644715 (GRCh38) [ NCBI UCSC ] 3: 15686222 (GRCh37) [ NCBI UCSC ]

Timeline in ClinVar

	First in ClinVar Help The date this variant first appeared in ClinVar with each type of classification.	Last submission Help The date of the most recent submission for each type of classification for this variant.	Last evaluated Help The most recent date that a submitter evaluated this variant for each type of classification.
Germline	Dec 30, 2023	Dec 30, 2023	Oct 10, 2023

HGVS

Nucleotide	Protein	Molecular consequence
NM_001370658.1:c.799del MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.	NP_001357587.1:p.Ala267fs	frameshift
NM_000060.4:c.859del		frameshift
NM_001281723.4:c.799del	NP_001268652.2:p.Ala267fs	frameshift
NM_001281724.3:c.799del	NP_001268653.2:p.Ala267fs	frameshift
NM_001281725.3:c.799del	NP_001268654.1:p.Ala267fs	frameshift
NM_001281726.2:c.*2577delG
NM_001323582.2:c.799del	NP_001310511.1:p.Ala267fs	frameshift
NM_001370752.1:c.799del	NP_001357681.1:p.Ala267fs	frameshift
NM_001370753.1:c.399+2658del		intron variant
NM_001407364.1:c.799del	NP_001394293.1:p.Ala267fs	frameshift
NM_001407365.1:c.799del	NP_001394294.1:p.Ala267fs	frameshift
NM_001407366.1:c.799del	NP_001394295.1:p.Ala267fs	frameshift
NM_001407367.1:c.799del	NP_001394296.1:p.Ala267fs	frameshift
NM_001407368.1:c.799del	NP_001394297.1:p.Ala267fs	frameshift
NM_001407369.1:c.799del	NP_001394298.1:p.Ala267fs	frameshift
NM_001407370.1:c.799del	NP_001394299.1:p.Ala267fs	frameshift
NM_001407371.1:c.799del	NP_001394300.1:p.Ala267fs	frameshift
NM_001407372.1:c.799del	NP_001394301.1:p.Ala267fs	frameshift
NM_001407373.1:c.799del	NP_001394302.1:p.Ala267fs	frameshift
NM_001407374.1:c.799del	NP_001394303.1:p.Ala267fs	frameshift
NM_001407375.1:c.799del	NP_001394304.1:p.Ala267fs	frameshift
NM_001407376.1:c.799del	NP_001394305.1:p.Ala267fs	frameshift
NM_001407377.1:c.799del	NP_001394306.1:p.Ala267fs	frameshift
NM_001407378.1:c.799del	NP_001394307.1:p.Ala267fs	frameshift
NM_001407379.1:c.799del	NP_001394308.1:p.Ala267fs	frameshift
NM_001407380.1:c.399+2658del		intron variant
NM_001407398.1:c.399+2658del		intron variant
NM_001407399.1:c.399+2658del		intron variant
NM_001407400.1:c.399+2658del		intron variant
NM_001407401.1:c.399+2658del		intron variant
NC_000003.12:g.15644715del
NC_000003.11:g.15686222del
NG_008019.3:g.48365del

... more HGVS ... less HGVS

Protein change

A267fs

Other names

Canonical SPDI

NC_000003.12:15644714:G:

Functional consequence Help The effect of the variant on RNA or protein function, based on experimental evidence from submitters.

Global minor allele frequency (GMAF) Help The global minor allele frequency calculated by the 1000 Genomes Project. The minor allele at this location is indicated in parentheses and may be different from the allele represented by this VCV record.

Allele frequency Help The frequency of the allele represented by this VCV record.

Links

VarSome

Genes

Gene	OMIM	ClinGen Gene Dosage Sensitivity Curation		Variation Viewer Help Links to Variation Viewer, a genome browser to view variation data from NCBI databases.	Related variants
Gene	OMIM	HI score Help The haploinsufficiency score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.	TS score Help The triplosensitivity score for the gene, curated by ClinGen’s Dosage Sensitivity Curation task team.		Within gene Help The number of variants in ClinVar that are contained within this gene, with a link to view the list of variants.	All Help The number of variants in ClinVar for this gene, including smaller variants within the gene and larger CNVs that overlap or fully contain the gene.
BTD		-	-	GRCh38 GRCh37	670	756

Conditions - Germline

Condition Help The condition for this variant-condition (RCV) record in ClinVar.	Classification Help The aggregate germline classification for this variant-condition (RCV) record in ClinVar. The number of submissions that contribute to this aggregate classification is shown in parentheses. (# of submissions)	Review status Help The aggregate review status for this variant-condition (RCV) record in ClinVar. This value is calculated by NCBI based on data from submitters. Read our rules for calculating the review status.	Last evaluated Help The most recent date that a submitter evaluated this variant for the condition.	Variation/condition record Help The RCV accession number, with most recent version number, for the variant-condition record, with a link to the RCV web page.
Biotinidase deficiency	Likely pathogenic (1)	criteria provided, single submitter	Oct 10, 2023	RCV003474453.1

Submissions - Germline

Classification Help The submitted germline classification for each SCV record. (Last evaluated)	Review status Help Stars represent the review status, or the level of review supporting the submitted (SCV) record. This value is calculated by NCBI based on data from the submitter. Read our rules for calculating the review status. This column also includes a link to the submitter’s assertion criteria if provided, and the collection method. (Assertion criteria)	Condition Help The condition for the classification, provided by the submitter for this submitted (SCV) record. This column also includes the affected status and allele origin of individuals observed with this variant.	Submitter Help The submitting organization for this submitted (SCV) record. This column also includes the SCV accession and version number, the date this SCV first appeared in ClinVar, and the date that this SCV was last updated in ClinVar.	More information Help This column includes more information supporting the classification, including citations, the comment on classification, and detailed evidence provided as observations of the variant by the submitter.
Likely pathogenic (Oct 10, 2023)	criteria provided, single submitter (ACMG Guidelines, 2015) Method: clinical testing	Biotinidase deficiency Affected status: unknown Allele origin: unknown	Baylor Genetics Accession: SCV004211413.1 First in ClinVar: Dec 30, 2023 Last updated: Dec 30, 2023

Germline Functional Evidence

There is no functional evidence in ClinVar for this variation. If you have generated functional data for this variation, please consider submitting that data to ClinVar.

Citations for germline classification of this variant

There are no citations for germline classification of this variant in ClinVar. If you know of citations for this variation, please consider submitting that information to ClinVar.

Text-mined citations for this variant ...

Record last updated Nov 30, 2024

ClinVar Genomic variation as it relates to human health

NM_001370658.1(BTD):c.799del (p.Ala267fs)

Variant Details

Genes

Conditions - Germline

Submissions - Germline

Germline Functional Evidence

Citations for germline classification of this variant

Text-mined citations for this variant ...