Basic Information
VIS ID
TVIS30000470
Fusion event
HIV-CDH6 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr5
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
31317510/31317403 (Hg38)
End
31317510/31317403 (Hg38)
Orient
+
Location type
Exonic
Fragile sites / regions
FRA5A
Target gene
CDH6
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-7-1-3p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-3681-3p ; hsa-mir-194-3p ; hsa-mir-216a-3p ; hsa-mir-128-3p ; hsa-mir-302f ; hsa-mir-27a-3p ; hsa-mir-27b-3p ; hsa-mir-6748-5p ; hsa-mir-6819-5p ; hsa-mir-6737-5p ; hsa-mir-6812-5p ; hsa-mir-6742-5p ; hsa-mir-92a-2-5p ; hsa-mir-6766-5p ; hsa-mir-6756-5p ; hsa-mir-6747-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-4664-5p ; hsa-mir-5196-5p ; hsa-mir-342-5p ; hsa-mir-4747-5p ; hsa-mir-4533 ; hsa-mir-1252-5p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-510-5p ; hsa-mir-512-5p ; hsa-mir-574-5p ; hsa-mir-297 ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-511-3p ; hsa-mir-3680-3p ; hsa-mir-33b-5p ; hsa-mir-33a-5p ; hsa-mir-3185 ; hsa-mir-4511
Nearest miRNA
hsa-mir-10397/Upstream/14161411; hsa-mir-103a-1/Downstream/618699;
Nearest TSS
ENST00000502646/Upstream/1153; ENST00000515409/Downstream/89553;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/123091, chr5-CpG: 42/Downstream/214600
Upstream sequence
TTATTGCAAAACGGTAAGAAACACTTTTGAGTTATCAAAATTTTATGGCAGCGTTTTGGTTTTTCTCTTAGTTGATTCAGACCCTGCATGCTGTTGACAA
Downstream sequence
GGATGACCCTTATAGTGGACACCAATTTTCGTTTTCCTTGGCCCCTGAAGCAGCCAGTGGCTCAAACTTTACCATTCAAGACAACAAAGGTAAATGAGTT
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
Curate