ClinVar Genomic variation as it relates to human health
NM_004329.3(BMPR1A):c.1238del (p.Leu413fs)
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.
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.
No data submitted for somatic clinical impact
No data submitted for oncogenicity
Variant Details
- Identifiers
-
NM_004329.3(BMPR1A):c.1238del (p.Leu413fs)
Variation ID: 3148713 Accession: VCV003148713.1
- Type and length
-
Deletion, 1 bp
- Location
-
Cytogenetic: 10q23.2 10: 86921591 (GRCh38) [ NCBI UCSC ] 10: 88681348 (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 May 1, 2024 May 1, 2024 Mar 1, 2024 - HGVS
-
Nucleotide Protein Molecular
consequenceNM_004329.3:c.1238del MANE Select Help Transcripts from the Matched Annotation from the NCBI and EMBL-EBI (MANE) collaboration.
NP_004320.2:p.Leu413fs frameshift NM_001406559.1:c.1313del NP_001393488.1:p.Leu438fs frameshift NM_001406560.1:c.1286del NP_001393489.1:p.Leu429fs frameshift NM_001406561.1:c.1238del NP_001393490.1:p.Leu413fs frameshift NM_001406562.1:c.1238del NP_001393491.1:p.Leu413fs frameshift NM_001406563.1:c.1238del NP_001393492.1:p.Leu413fs frameshift NM_001406564.1:c.1238del NP_001393493.1:p.Leu413fs frameshift NM_001406565.1:c.1238del NP_001393494.1:p.Leu413fs frameshift NM_001406566.1:c.1238del NP_001393495.1:p.Leu413fs frameshift NM_001406567.1:c.1238del NP_001393496.1:p.Leu413fs frameshift NM_001406568.1:c.1238del NP_001393497.1:p.Leu413fs frameshift NM_001406569.1:c.1238del NP_001393498.1:p.Leu413fs frameshift NM_001406570.1:c.1238del NP_001393499.1:p.Leu413fs frameshift NM_001406571.1:c.1238del NP_001393500.1:p.Leu413fs frameshift NM_001406572.1:c.1238del NP_001393501.1:p.Leu413fs frameshift NM_001406573.1:c.1238del NP_001393502.1:p.Leu413fs frameshift NM_001406574.1:c.1238del NP_001393503.1:p.Leu413fs frameshift NM_001406575.1:c.1238del NP_001393504.1:p.Leu413fs frameshift NM_001406576.1:c.1238del NP_001393505.1:p.Leu413fs frameshift NM_001406577.1:c.1238del NP_001393506.1:p.Leu413fs frameshift NM_001406578.1:c.1238del NP_001393507.1:p.Leu413fs frameshift NM_001406579.1:c.1238del NP_001393508.1:p.Leu413fs frameshift NM_001406580.1:c.1238del NP_001393509.1:p.Leu413fs frameshift NM_001406581.1:c.1238del NP_001393510.1:p.Leu413fs frameshift NM_001406582.1:c.1238del NP_001393511.1:p.Leu413fs frameshift NM_001406583.1:c.1232del NP_001393512.1:p.Leu411fs frameshift NM_001406584.1:c.1154del NP_001393513.1:p.Leu385fs frameshift NM_001406585.1:c.1154del NP_001393514.1:p.Leu385fs frameshift NM_001406586.1:c.1154del NP_001393515.1:p.Leu385fs frameshift NM_001406587.1:c.1154del NP_001393516.1:p.Leu385fs frameshift NM_001406588.1:c.1154del NP_001393517.1:p.Leu385fs frameshift NM_001406589.1:c.896del NP_001393518.1:p.Leu299fs frameshift NR_176211.1:n.1806del non-coding transcript variant NR_176212.1:n.1806del non-coding transcript variant NR_176213.1:n.1806del non-coding transcript variant NC_000010.11:g.86921591del NC_000010.10:g.88681348del NG_009362.1:g.169953del LRG_298:g.169953del LRG_298t1:c.1238del LRG_298p1:p.Leu413Argfs - Protein change
- L385fs, L429fs, L438fs, L411fs, L299fs, L413fs
- Other names
- -
- Canonical SPDI
- NC_000010.11:86921590:T:
-
Functional
consequence HelpThe effect of the variant on RNA or protein function, based on experimental evidence from submitters.
-
-
Global minor allele
frequency (GMAF) HelpThe 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
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 | ||
---|---|---|---|---|---|---|
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. |
|||
BMPR1A | Sufficient evidence for dosage pathogenicity | No evidence available |
GRCh38 GRCh37 |
2284 | 2378 |
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. |
---|---|---|---|---|
Pathogenic (1) |
criteria provided, single submitter
|
Mar 1, 2024 | RCV004442607.1 |
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. |
|
---|---|---|---|---|---|
Pathogenic
(Mar 01, 2024)
|
criteria provided, single submitter
Method: clinical testing
|
Juvenile polyposis syndrome
Affected status: unknown
Allele origin:
unknown
|
Myriad Genetics, Inc.
Accession: SCV004930951.1
First in ClinVar: May 01, 2024 Last updated: May 01, 2024 |
Comment:
This variant is considered pathogenic. This variant creates a frameshift predicted to result in premature protein truncation.
|
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
HelpThere 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 ...
HelpRecord last updated May 08, 2024
This date represents the last time this VCV record was updated. The update may be due to an update to one of the included submitted records (SCVs), or due to an update that ClinVar made to the variant such as adding HGVS expressions or a rs number. So this date may be different from the date of the “most recent submission” reported at the top of this page.