Basic Information
VIS ID
TVIS30008932
Fusion event
HIV-FAF2 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
chr5
Cytoband
q35.2
Reference genome
GRCh37/hg19
Start
175893488/176466487 (Hg38)
End
175893488/176466487 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
FAF2
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-193b-3p ; hsa-mir-149-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p
Nearest miRNA
hsa-mir-10397/Upstream/98456; hsa-mir-1229/Downstream/162952;
Nearest TSS
ENST00000502646/Upstream/13348; ENST00000513627/Downstream/25752;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/18060, chr5-CpG: 135/Downstream/70010
Upstream sequence
GCAAGCTAAAACCAACAAGCCAATTGGAATTTAGAGAGTACTTAAATCTCAGCTGAGATTTCACACCAACCCCGTGCAGCGTTTGTTAGTATAAACAGAT
Downstream sequence
GAGATATGGAAAGATAAACTCCACTTAGGAAAATGAGGAGATTACACCCTGGTTACCCAATCCCTATCCAAATAGCTGTTTGAGCCATCTGGTTAAAATA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate