Basic Information
VIS ID
TVIS30000603
Fusion event
HIV-SYNRG 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
q12
Reference genome
GRCh37/hg19
Start
35960565/37600518 (Hg38)
End
35960565/37600518 (Hg38)
Orient
+
Location type
Intronic
Target gene
SYNRG
miRNAs that regulate target gene
hsa-mir-1180-3p ; hsa-mir-1304-3p ; hsa-mir-3191-5p ; hsa-mir-4284 ; hsa-mir-29b-1-5p ; hsa-mir-4772-3p ; hsa-mir-6824-3p ; hsa-mir-6764-3p ; hsa-mir-330-5p ; hsa-mir-326 ; hsa-mir-518c-5p ; hsa-mir-6817-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-4485-5p ; hsa-mir-6890-3p ; hsa-mir-498 ; hsa-mir-24-3p ; hsa-mir-4783-3p ; hsa-mir-5693 ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-6875-3p ; hsa-mir-22-5p ; hsa-mir-1184 ; hsa-mir-5584-3p ; hsa-mir-5694 ; hsa-mir-383-5p ; hsa-mir-148a-5p ; hsa-mir-103a-3p ; hsa-mir-107 ; hsa-mir-195-5p ; hsa-mir-6838-5p ; hsa-mir-15a-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-15b-5p ; hsa-mir-16-5p ; hsa-mir-193b-3p ; hsa-mir-193a-3p
Nearest miRNA
hsa-mir-1180/Upstream/566705; hsa-mir-10226/Downstream/14413;
Nearest TSS
ENST00000595228/Upstream/15105; ENST00000619099/Downstream/470;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/87594, chr17-CpG: 69/Downstream/8519
Upstream sequence
AAATACATTATAATCTTCGTATGTACAAAGATTTCAAATAACACGTGTACTTTTTTATATGGATAAAAGACTTGTAGATGGGACCTGGTGTTTGTTCTGC
Downstream sequence
ACCACAATACTGAATTGCCCAACATCAGTACACTGAGCATCCATAGGATGCATGTCAGCATGCTACTGCAGACGGAAACTTGTTGAAACAAAAGACAgaa
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.
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