Basic Information
VIS ID
TVIS30013451
Fusion event
HIV-RNGTT 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
chr6
Cytoband
q15
Reference genome
GRCh37/hg19
Start
89631827/88922108 (Hg38)
End
89631827/88922108 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6G
Target gene
RNGTT
miRNAs that regulate target gene
hsa-mir-25-3p ; hsa-mir-20a-5p
Nearest miRNA
hsa-mir-10398/Upstream/10382799; hsa-mir-1202/Downstream/1390634;
Nearest TSS
ENST00000381078/Upstream/501075; ENST00000354922/Downstream/41301;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/754378, chr6-CpG: 60/Downstream/41057
Upstream sequence
accaatcccctgaggagtctgaggaacaacCACATTAATTTTTTTTTTGCCtttattattattatattaaataattttttagagaccaggtctggctatg
Downstream sequence
ttgtccaggctggacttcaactcccaggctcaagcagtctttccaccttagctcccaagtagctgggactacaggcatgtgccactgggcccagcTCTTA
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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