Basic Information
VIS ID
TVIS30007035
Fusion event
HIV-SSH2 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
chr17
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
28055233/29728215 (Hg38)
End
28055233/29728215 (Hg38)
Orient
+
Location type
Intronic
Target gene
SSH2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-130b-5p ; hsa-mir-222-3p ; hsa-mir-20a-5p ; hsa-mir-155-5p ; hsa-mir-106b-5p ; hsa-mir-526b-5p ; hsa-mir-4445-5p ; hsa-mir-6766-3p ; hsa-mir-4782-3p ; hsa-mir-219a-5p ; hsa-mir-508-3p ; hsa-mir-574-5p ; hsa-mir-4693-3p ; hsa-mir-5584-3p ; hsa-mir-4311 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-196a-3p ; hsa-mir-6860 ; hsa-mir-661 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-766-3p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-6849-3p ; hsa-mir-759 ; hsa-mir-5586-3p ; hsa-mir-508-5p ; hsa-mir-4797-5p ; hsa-mir-623 ; hsa-mir-6780b-3p ; hsa-mir-4780 ; hsa-mir-26a-5p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-93-5p ; hsa-mir-17-5p
Nearest miRNA
hsa-mir-1180/Upstream/337485; hsa-mir-10226/Downstream/388864;
Nearest TSS
ENST00000595228/Upstream/88588; ENST00000577846/Downstream/32888;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/104956, chr17-CpG: 73/Downstream/32794
Upstream sequence
ctgtgcccAtgcagatgatatgatctcacatttgaaaaaaacctaaagactccaccaaaaaactattagaactgataaacaaattcagtaaaattgtggg
Downstream sequence
atacataatcggcatacaaaaatcagtagcatttctatatgccaacagcaaacaatctgaaaacgaaatttaagaagtaataccatttacagtagtcaca
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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