Basic Information
VIS ID
TVIS30008151
Fusion event
HIV-RTCB 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
chr22
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
32789314/32393327 (Hg38)
End
32789314/32393327 (Hg38)
Orient
-
Location type
Intronic
Target gene
RTCB
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-423-3p ; hsa-mir-92a-3p ; hsa-mir-1262 ; hsa-mir-152-5p ; hsa-mir-182-3p ; hsa-mir-29b-1-5p ; hsa-mir-3157-5p ; hsa-mir-3692-5p ; hsa-mir-371a-5p ; hsa-mir-371b-5p ; hsa-mir-372-5p ; hsa-mir-373-5p ; hsa-mir-4252 ; hsa-mir-4264 ; hsa-mir-4290 ; hsa-mir-4701-3p ; hsa-mir-542-3p ; hsa-mir-597-3p ; hsa-mir-6071 ; hsa-mir-616-5p ; hsa-mir-622 ; hsa-mir-661 ; hsa-mir-6736-5p ; hsa-mir-6742-3p ; hsa-mir-6764-3p ; hsa-mir-6776-5p ; hsa-mir-6824-3p ; hsa-mir-6828-3p ; hsa-mir-6884-3p ; hsa-mir-6889-3p ; hsa-mir-93-3p
Nearest miRNA
hsa-mir-1286/Upstream/771796; hsa-let-7a-3/Downstream/1043255;
Nearest TSS
ENST00000624155/Upstream/9541; ENST00000465418/Downstream/6658;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/216789, chr22-CpG: 36/Downstream/18511
Upstream sequence
gcctggcctaaaatagttctattagaacacagcattgcccatttacacagtacttaaggttgcttctgcactgaaatggcatagctgaatagctggtaca
Downstream sequence
cagaccatctggtcccaaaagcctaaaatatttacggtctggccctttatgggaagagtttcctgacccctgGGCTTAGAAGATGAGAGGCAGTGTTTTG
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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