Basic Information
VIS ID
TVIS30007948
Fusion event
HIV-ATRN 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
chr20
Cytoband
p13
Reference genome
GRCh37/hg19
Start
3462662/3482015 (Hg38)
End
3462662/3482015 (Hg38)
Orient
+
Location type
Intronic
Target gene
ATRN
miRNAs that regulate target gene
hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-5584-3p ; hsa-mir-6874-3p ; hsa-mir-148b-5p ; hsa-mir-3168 ; hsa-mir-3662
Nearest miRNA
hsa-mir-1292/Upstream/829173; hsa-mir-1-1/Downstream/435479;
Nearest TSS
ENST00000382410/Upstream/10907; ENST00000254963/Downstream/181384;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/10805, chr20-CpG: 116/Downstream/178468
Upstream sequence
ATAAGCCAGTAAACATTAGGGGCTGGAATTCTGTCAGTTGCTGTTAAGAGTCACATAAGTAACCTCCCTTGACCTgtgttttctaaatttttaaattcac
Downstream sequence
agatcctttcacaaaaatgtataatcttatggactcccgtaggaattaaaaaataataatcttttaaaaaatgtatcctgtttttaagataattttaaat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate