Basic Information
VIS ID
TVIS30013220
Fusion event
HIV-RHOH 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
p14
Reference genome
GRCh37/hg19
Start
40221819/40220199 (Hg38)
End
40221819/40220199 (Hg38)
Orient
-
Location type
Intronic
Target gene
RHOH
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-4701-5p ; hsa-mir-4715-3p ; hsa-mir-4775 ; hsa-mir-1227-3p ; hsa-mir-4735-5p ; hsa-mir-500b-3p ; hsa-mir-455-5p ; hsa-mir-590-3p ; hsa-mir-6807-5p ; hsa-mir-6778-3p ; hsa-mir-150-5p ; hsa-mir-6787-3p ; hsa-mir-6827-3p ; hsa-mir-340-3p ; hsa-mir-186-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-6873-3p ; hsa-mir-421 ; hsa-mir-505-3p ; hsa-mir-7159-5p ; hsa-mir-676-5p ; hsa-mir-6515-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-3065-5p ; hsa-mir-365a-3p
Nearest miRNA
hsa-mir-12113/Upstream/808225; hsa-mir-1243/Downstream/281841;
Nearest TSS
ENST00000502981/Upstream/19854; ENST00000515422/Downstream/45273;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/162935, chr4-CpG: 118/Downstream/217605
Upstream sequence
TTGTCCCTTTCCAACATCATCTTCCACCTGTGCTTCAGCCACCATAGCCAGCTGTCTATTCTCCAAATACCCACGTGCACACCTGGGCACCAGCCGCTTC
Downstream sequence
CTCTGCCTGCATGCGGTCCACCAGTCCTATTTCTTTCTCTCCTCCAAGACCAAGTTCAAATGTTCCTCCTCTCCCCCTCCCCACCCCACCACCCTGGAAG
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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