A curated catalogue of human genomic structural variation




Variant Details

Variant: nsv3381507



Internal ID19812486
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
chr5:42165828..42167668hg38UCSC Ensembl
chr5:42165930..42167770hg19UCSC Ensembl
Cytoband5p13.1
Allele length
AssemblyAllele length
hg381841
hg191841
Variant TypeCNV line1 deletion
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsnssv14786524, nssv14781262, nssv14775552, nssv14783696, nssv14776600, nssv14784038, nssv14772953, nssv14774574, nssv14783065, nssv14777929
SamplesCHM13, HG00268, NA12878, HG02818, HX1, HG02059, HG01352, NA19434, NA19240, HG00514
Known GenesLOC101926960
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)nsv3381507
Frequency
Sample Size14
Observed Gain0
Observed Loss10
Observed Complex0
Frequencyn/a


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