Version: Last updated 2026-05-02
Assembly: Human Dec. 2013 (GRCh38/hg38)
Description
This track displays structural variants (SVs) in
dbVar that are not classified as
common, somatic, or clinical. The track is defined by exclusion: it contains dbVar SVs minus
variants with somatic origin (covered by the
dbVar Somatic SV track)
clinical variants from ClinVar (covered by the
ClinVar track)
variants of the types: short tandem repeat, interchromosomal translocation, intrachromosomal
translocation
variants from a set of legacy or obsoleted dbVar studies (nstd45, nstd75, nstd90, estd59,
estd199, estd214)
variants discovered using low-confidence methods (BAC aCGH, FISH, Karyotyping, MassSpec,
Microsatellite genotyping, Multiple complete digestion, Not provided, ROMA, Southern, Western)
NCBI sometimes refers to this category as presumed normal SVs in their hub documentation
and source files. We use the term Other here to avoid implying that the variants are
clinically normal — the track is purely a residual bucket of dbVar SVs that don't fit the
other three composites.
This track is updated with every monthly dbVar release.
Subtracks
The Other SVs are split into two subtracks:
dbVar Healthy SVs: SVs in dbVar with no reported phenotype.
dbVar Phenotype SVs: SVs in dbVar with a reported phenotype, excluding clinical
and somatic variants.
The Healthy subtrack is considerably larger than the Phenotype subtrack. Turning on
Hide empty subtracks (default) limits the display to subtracks with data in the current
viewing window.
Display Conventions and Configuration
Variants are colored by type, using the dbVar color scheme described in the
dbVar Overview
page:
Color
Variant Type(s)
deletion, delins, copy number loss
duplication, copy number gain, insertion
copy number variation
inversion
complex substitution
tandem duplication
sequence alteration
Mouseover on items shows gene(s) affected, size, variant type, dbVar study of origin,
discovery method, phenotype (in the Phenotype subtrack), and population code (if available).
Subtracks can be filtered by:
Variant Type
Variant Size (Under 10KB, 10KB to 100KB, 100KB to 1MB, Over 1MB)
Pathogenic Reciprocal Overlap (none, 10 to 25, 25 to 50, 50 to 75, 75 to 90, 90 to 100)
— range of reciprocal overlap with pathogenic variants in nstd102
Per NCBI's dbVar processing pipeline, variant calls are extracted from the
variant_calls.gvf files on the dbVar FTP site, reciprocally overlapped with the
pathogenic clinical SV file using bedtools, filtered by the exclusion criteria described above,
and converted to bigBed format. See the
dbVar
Overview for full methods.
Data Access
The raw data can be explored interactively with the
Table Browser, or the
Data Integrator. Due to the size of the Healthy subtrack (over
5 million items), Table Browser queries on large regions may be slow — narrow by
chromosome or region where possible.