A curated catalogue of human genomic structural variation




Variant Details

Variant: nsv3353138



Internal ID19784116
Landmark
Location Information
TypeCoordinatesAssemblyOther Links
chr13:29641687..29647707hg38UCSC Ensembl
chr13:30215824..30221844hg19UCSC Ensembl
Cytoband13q12.3
Allele length
AssemblyAllele length
hg386021
hg196021
Variant TypeCNV line1 deletion
Copy Number
Allele State
Allele Origin
Probe Count
Validation Flag
Merged StatusM
Merged Variants
Supporting Variantsnssv14738981, nssv14740898, nssv14741170, nssv14740755, nssv14732951, nssv14744323, nssv14734318, nssv14739399, nssv14736082, nssv14742804, nssv14741790
SamplesHG04217, CHM1, HG00268, NA12878, HG02818, HG02059, HG01352, NA19434, NA19240, HG00733, HG00514
Known Genes
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)nsv3353138
Frequency
Sample Size14
Observed Gain0
Observed Loss11
Observed Complex0
Frequencyn/a


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