Basic Information
VIS ID
TVIS30008751
Fusion event
HIV-OXCT1 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
p13.1
Reference genome
GRCh37/hg19
Start
41816572/41816470 (Hg38)
End
41816572/41816470 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
OXCT1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-100-5p
Nearest miRNA
hsa-mir-10397/Upstream/3258909; hsa-mir-103a-1/Downstream/12135034;
Nearest TSS
ENST00000502646/Upstream/21827; ENST00000505931/Downstream/26287;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/305921, chr5-CpG: 104/Downstream/53091
Upstream sequence
AATTCAAACATGTTTATCACATTTCAACTATGACTTTAGCATGATGATCAAATGGCTCTTAGTACAAGTAGGGAGATGCACAATCAGTTTTACTGCTGGC
Downstream sequence
AACACTTGGTTCCAGGCTTTTCTAACTCACTGAATTTCAGCATCTAGTCATCATGGGAAAGCAAGGCAAGTCTTAATTCTGGtgttaagttaaataattc
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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