Basic Information
VIS ID
TVIS30013231
Fusion event
HIV-RCHY1 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
chr4
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
76409173/75483963 (Hg38)
End
76409173/75483963 (Hg38)
Orient
-
Location type
Intronic
Target gene
RCHY1
miRNAs that regulate target gene
hsa-mir-218-5p
Nearest miRNA
hsa-mir-12113/Upstream/9207035; hsa-mir-1243/Downstream/1089605;
Nearest TSS
ENST00000502981/Upstream/49514; ENST00000504218/Downstream/10468;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/549242, chr4-CpG: 56/Downstream/30262
Nearest cancer related gene
RCHY1(TSG, No orient, 0)
Upstream sequence
GAATACTAGGCTTTCCCATTCTAATCTAAAACTCAATACCATGTATGGCTGAGAAGAGACAGCAACACATCTTAATTAAACGAAAAAAGATGATCACTCT
Downstream sequence
CCATAAGCCAAAAGGCACAGAAACAACCTTTTATGCTTTAGGTTGCAAGCTAATTGCAACCAAATAAAGAAAGTCAagaccctctgaatctattctggtt
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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