Basic Information
VIS ID
TVIS30004761
Fusion event
HIV-ZNF616 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
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr19
Cytoband
q13.41
Reference genome
GRCh37/hg19
Start
52631591/52128338 (Hg38)
End
52631591/52128338 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
ZNF616
miRNAs that regulate target gene
hsa-mir-4768-5p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4452 ; hsa-mir-3191-5p ; hsa-mir-6873-3p ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-146a-3p ; hsa-mir-6845-3p ; hsa-mir-5571-5p ; hsa-mir-4262 ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-3160-5p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-100-3p ; hsa-mir-4317 ; hsa-mir-335-3p ; hsa-mir-5096 ; hsa-mir-4653-5p ; hsa-mir-3921 ; hsa-mir-181d-3p ; hsa-mir-329-5p ; hsa-mir-4502 ; hsa-mir-587 ; hsa-mir-374a-3p ; hsa-mir-183-5p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-197-3p ; hsa-mir-486-3p ; hsa-mir-3124-3p ; hsa-mir-3675-5p ; hsa-mir-382-3p ; hsa-mir-556-5p
Nearest miRNA
hsa-let-7e/Upstream/434999; hsa-mir-10394/Downstream/93682;
Nearest TSS
ENST00000633603/Upstream/32573; ENST00000597886/Downstream/10487;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/32353, chr19-CpG: 58/Downstream/11022
Upstream sequence
TGGGGAAAATGAAAACCCTTCGTATTTCCATTTTCCAATTCCTTGGACTGTGAGGAGGTTTCATTATTTTGTGGAAATCAAACCAAAATAATTTTCATTC
Downstream sequence
TTTGCTCAGTTTTCCTTTACTGCATTCTAGGAGCCATTTCATATTCTGTAGttaaatttttaaaatatatatGCCTTGATGTCCTTTTCTTAGGTTATAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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