ClinVar Genomic variation as it relates to human health
GRCh38/hg38 10q26.3(chr10:133538858-133620609)x3
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
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GRCh38/hg38 10q26.3(chr10:133538858-133620609)x3
Variation ID: 154408 Accession: VCV000154408.2
- Type and length
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copy number gain, 81,752 bp
- Location
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Cytogenetic: 10q26.3 10: 133538858-133620609 (GRCh38) [ NCBI UCSC ] 10: 135352362-135434113 (GRCh37) [ NCBI UCSC ] 10: 135202352-135284103 (NCBI36) [ NCBI UCSC ]
- Timeline in ClinVar
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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 Jul 10, 2015 Jul 10, 2015 Sep 21, 2012 - HGVS
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Nucleotide Protein Molecular
consequenceNC_000010.11:g.(?_133538858)_(133620609_?)dup NC_000010.10:g.(?_135352362)_(135434113_?)dup NC_000010.9:g.(?_135202352)_(135284103_?)dup - Protein change
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- Other names
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- Canonical SPDI
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Functional
consequence HelpThe effect of the variant on RNA or protein function, based on experimental evidence from submitters.
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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.
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Allele frequency
Help
The frequency of the allele represented by this VCV record.
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- Links
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dbVar: nssv1601313 dbVar: nssv1601365 dbVar: nssv1601414 dbVar: nssv1601603 dbVar: nssv1601681 dbVar: nssv1601701 dbVar: nssv1601861 dbVar: nssv1601917 dbVar: nssv1602053 dbVar: nssv1602150 dbVar: nssv1602255 dbVar: nssv1602529 dbVar: nssv1602806 dbVar: nssv1602817 dbVar: nssv1603044 dbVar: nssv1604428 dbVar: nssv1604561 dbVar: nssv1604828 dbVar: nssv1603456 dbVar: nssv1603474 dbVar: nssv1603574 dbVar: nssv1603580 dbVar: nssv1603948 dbVar: nssv1604198 dbVar: nssv1604292 dbVar: nssv583854 dbVar: nssv583858 dbVar: nssv583916 dbVar: nssv583950 dbVar: nssv583990 dbVar: nssv584020 dbVar: nssv584037 dbVar: nssv584150 dbVar: nssv584168 dbVar: nssv584199 dbVar: nssv584275 dbVar: nssv706726 dbVar: nssv706860 dbVar: nssv706868 dbVar: nssv707018 dbVar: nsv497823 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 | ||
|---|---|---|---|---|---|---|
| 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. |
|||
| CYP2E1 | - | - |
GRCh38 GRCh37 |
29 | 215 | |
| SYCE1 | - | - |
GRCh38 GRCh37 |
44 | 212 | |
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. |
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See cases
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Benign (1) |
no assertion criteria provided
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Sep 21, 2012 | RCV000142475.5 |
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. |
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Benign
(Sep 21, 2012)
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no assertion criteria provided
Method: clinical testing
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See cases
Affected status: yes
Allele origin:
unknown
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ISCA site 4
Additional submitter:
International Standards For Cytogenomic Arrays Consortium (ISCA)
Accession: SCV000174323.3
First in ClinVar: Sep 01, 2014 Last updated: Jul 10, 2015
Comment:
Copy number variation identified through the course of routine clinical cytogenomic testing in postnatal populations, with clinical assertions as classified by the original submitter.
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Observation 1:
Number of individuals with the variant: 1
Clinical Features:
Cardiomyopathy (present)
Method: Microarray
Observation 2:
Number of individuals with the variant: 1
Clinical Features:
Seizure (present)
Method: Microarray
Observation 3:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 4:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 5:
Number of individuals with the variant: 1
Clinical Features:
Autism (present)
Method: Microarray
Observation 6:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 7:
Number of individuals with the variant: 1
Clinical Features:
Autism (present)
Method: Microarray
Observation 8:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 9:
Number of individuals with the variant: 1
Clinical Features:
Autism (present)
Method: Microarray
Observation 10:
Number of individuals with the variant: 1
Clinical Features:
Global developmental delay (present)
Method: Microarray
Observation 11:
Number of individuals with the variant: 1
Clinical Features:
Global developmental delay (present)
Method: Microarray
Observation 12:
Number of individuals with the variant: 1
Clinical Features:
Cleft upper lip (present) , Cleft palate (present)
Method: Microarray
Observation 13:
Number of individuals with the variant: 1
Clinical Features:
Global developmental delay (present)
Method: Microarray
Observation 14:
Number of individuals with the variant: 1
Clinical Features:
Abnormality of the nervous system (present)
Method: Microarray
Observation 15:
Number of individuals with the variant: 1
Clinical Features:
Intellectual disability (present)
Method: Microarray
Observation 16:
Number of individuals with the variant: 1
Clinical Features:
Seizure (present) , Behavioral abnormality (present) , Global developmental delay (present) , Delayed speech and language development (present)
Method: Microarray
Observation 17:
Number of individuals with the variant: 1
Clinical Features:
Autism (present)
Method: Microarray
Observation 18:
Number of individuals with the variant: 1
Clinical Features:
Autism (present)
Method: Microarray
Observation 19:
Number of individuals with the variant: 1
Clinical Features:
Hyperkinesis (present) , Hyperpigmentation of the skin (present)
Method: Microarray
Observation 20:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 21:
Number of individuals with the variant: 1
Clinical Features:
Autism (present)
Method: Microarray
Observation 22:
Number of individuals with the variant: 1
Clinical Features:
Ventricular septal defect (present) , Defect in the atrial septum (present) , Growth delay (present) , Ptosis (present) , Delayed speech and language development (present)
Method: Microarray
Observation 23:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 24:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 25:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 26:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 27:
Number of individuals with the variant: 1
Clinical Features:
Intellectual disability (present)
Method: Microarray
Observation 28:
Number of individuals with the variant: 1
Clinical Features:
Autism (present)
Method: Microarray
Observation 29:
Number of individuals with the variant: 1
Clinical Features:
Muscular hypotonia (present)
Method: Microarray
Observation 30:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 31:
Number of individuals with the variant: 1
Clinical Features:
Intellectual disability (present)
Method: Microarray
Observation 32:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 33:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 34:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 35:
Number of individuals with the variant: 1
Clinical Features:
Autism (present) , Nonprogressive encephalopathy (present)
Method: Microarray
Observation 36:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 37:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 38:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 39:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
Observation 40:
Number of individuals with the variant: 1
Clinical Features:
Developmental delay AND/OR other significant developmental or morphological phenotypes (present)
Method: Microarray
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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
Help| 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 ...
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.