Basic Information
VIS ID
TVIS30009234
Fusion event
HIV-TNRC18 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
chr7
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
5377143/5337512 (Hg38)
End
5377143/5337512 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA7B
Target gene
TNRC18
miRNAs that regulate target gene
hsa-mir-183-5p ; hsa-mir-34a-5p ; hsa-mir-1307-3p ; hsa-mir-455-3p ; hsa-mir-615-3p ; hsa-mir-92a-3p ; hsa-mir-218-5p ; hsa-mir-142-3p ; hsa-mir-193b-5p ; hsa-mir-20b-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-3065-3p ; hsa-mir-3137 ; hsa-mir-3170 ; hsa-mir-3686 ; hsa-mir-383-3p ; hsa-mir-4291 ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-5572 ; hsa-mir-6737-5p ; hsa-mir-6812-5p ; hsa-mir-6819-5p ; hsa-mir-6855-5p ; hsa-mir-767-5p
Nearest miRNA
hsa-mir-339/Upstream/548873; hsa-mir-10399/Downstream/158307;
Nearest TSS
ENST00000635602/Upstream/4634; ENST00000342963/Downstream/24515;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/4426, chr7-CpG: 22/Downstream/14180
Upstream sequence
ggcggaggttgcagtaagtcaagatcgcgccattgcactccagcctgggtgacagagtgagactgtttcaaaaaaaaaaaaggaacaccaagaaaattcc
Downstream sequence
tcaccagcagctctacaaggcaaaactgctaaatgaagttctttgggctgaaactgcaggaaaactggaatcctcagacaagaatgaaaagcaacagaaa
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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