A curated catalogue of human genomic structural variation




Variant Details

Variant: nsv3360862



Internal ID19791840
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
chr3:130628724..130634265hg38UCSC Ensembl
chr3:130347568..130353109hg19UCSC Ensembl
Cytoband3q22.1
Allele length
AssemblyAllele length
hg385542
hg195542
Variant TypeCNV line1 deletion
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsnssv14789536, nssv14774570, nssv14783517, nssv14786247, nssv14780154
SamplesHG02106, CHM1, HG02818, HG01352, NA19240
Known GenesCOL6A6
MethodSequencing
AnalysisRead and contig alignments were done with BLASR. The Celera assembler (8.3rc2) was used to assemble RS II samples (CHM1, CHM13, HG00514, HG00733, NA19240, HG02818, NA19434, HG01352, HG02059, NA12878, and HG04217, and Canu (1.7) was used for Sequel samples (HG02106 and HG00268). Variant calling was performed with SMRT-SV (10.1101/gr.214007.116).
PlatformPacBio RS II P6C4, PacBio Sequel v2.1
CommentsAbsence of a L1 insertion that is present in the reference
ReferenceAudano_et_al_2019
Pubmed ID30661756
Accession Number(s)nsv3360862
Frequency
Sample Size14
Observed Gain0
Observed Loss5
Observed Complex0
Frequencyn/a


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