Basic Information
VIS ID
TVIS30001774
Fusion event
HIV-ASCC1 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
chr10
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
73909438/72149680 (Hg38)
End
73909438/72149680 (Hg38)
Orient
-
Location type
Intronic
Target gene
ASCC1
miRNAs that regulate target gene
hsa-mir-1287-3p ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-335-5p ; hsa-mir-646 ; hsa-mir-503-5p ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-451b ; hsa-mir-543 ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-944 ; hsa-mir-8054 ; hsa-mir-548k ; hsa-mir-548av-5p ; hsa-mir-548n ; hsa-mir-6840-3p ; hsa-mir-500b-3p ; hsa-mir-224-5p ; hsa-mir-6776-3p
Nearest miRNA
hsa-mir-1265/Upstream/358880; hsa-mir-107/Downstream/571349;
Nearest TSS
ENST00000439456/Upstream/15217; ENST00000478193/Downstream/9695;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/61205, chr10-CpG: 44/Downstream/66233
Upstream sequence
ataatttttaagaattatgagactgtgagaccaaaaagtttcagaactgcCATCTTAGATGATTCATTGTTTCTGTTCACAAAGTTGAAAAATAATCTAC
Downstream sequence
CCTATACATAGTACATTGTAGTTCTAGAATACTGTGAAGGCATTTGGATACTTAGAACACAAAGTAAATGATCCAGATATCAAATTTCAACCTGGCGGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate