Basic Information
VIS ID
TVIS30002998
Fusion event
HIV-B3GNT3 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
p13.11
Reference genome
GRCh37/hg19
Start
17915727/17804918 (Hg38)
End
17915727/17804918 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
B3GNT3
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-mir-10395/Upstream/2355310; hsa-let-7e/Downstream/477159;
Nearest TSS
ENST00000633603/Upstream/9761; ENST00000602216/Downstream/16587;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/9410, chr19-CpG: 31/Downstream/3010
Upstream sequence
agtgctgggatgacagctgtgagccactgcacccagccCTTCACCTTATTTTCTAAACCTGCATACTCTCCTATACCCCAGCAGCCAGCCTCTGTCTAGG
Downstream sequence
CCACCAAACTCTTCCACCTAGATGTTACCCAATCtccccccacccagcctcctgagtagctgggactacaggtgtacaccaccacactcagctaattttg
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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