Basic Information
VIS ID
TVIS30000776
Fusion event
HIV-GPATCH8 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
chr17
Cytoband
q21.31
Reference genome
GRCh37/hg19
Start
42519322/44441954 (Hg38)
End
42519322/44441954 (Hg38)
Orient
-
Location type
Intronic
Target gene
GPATCH8
miRNAs that regulate target gene
hsa-mir-590-3p ; hsa-mir-130b-3p ; hsa-mir-148a-3p ; hsa-mir-19b-3p ; hsa-mir-302c-5p ; hsa-mir-655-3p ; hsa-mir-543 ; hsa-mir-3143 ; hsa-mir-374c-5p ; hsa-mir-3613-3p ; hsa-mir-552-5p ; hsa-mir-2053 ; hsa-mir-569 ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-6828-5p ; hsa-mir-1183 ; hsa-mir-8084 ; hsa-mir-4506 ; hsa-mir-15b-5p ; hsa-mir-16-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-15a-5p ; hsa-mir-6838-5p ; hsa-mir-200b-3p ; hsa-mir-200c-3p ; hsa-mir-429 ; hsa-mir-4257 ; hsa-mir-6847-5p ; hsa-mir-5582-5p ; hsa-mir-548an ; hsa-mir-124-3p ; hsa-mir-2355-3p ; hsa-mir-4646-3p ; hsa-mir-4433b-5p ; hsa-mir-7977 ; hsa-mir-4433a-5p ; hsa-mir-545-3p ; hsa-mir-4307 ; hsa-mir-548p ; hsa-mir-33a-3p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-223-3p ; hsa-mir-4328
Nearest miRNA
hsa-mir-1180/Upstream/234115; hsa-mir-10226/Downstream/492664;
Nearest TSS
ENST00000595228/Upstream/5167; ENST00000315323/Downstream/3968;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/55743, chr17-CpG: 72/Downstream/61055
Upstream sequence
cctgtatctactaaaaatacaaaattagctgggcatggtggtgcatgcctgtaatcctagctacttgggaggctgaggcaggagaatcgcttaaacccgg
Downstream sequence
gaggcggaggttgcagtgagctgacatcgtaccatcgcactccagactgggcaacaagagtgaaactctgtctcaaaGAGACAaaaataaaataaaataa
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