Basic Information
VIS ID
TVIS30010748
Fusion event
HIV-TTC28 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
q12.1
Reference genome
GRCh37/hg19
Start
28877269/28481281 (Hg38)
End
28877269/28481281 (Hg38)
Orient
-
Location type
Intronic
Target gene
TTC28
miRNAs that regulate target gene
hsa-mir-378a-3p ; hsa-mir-182-5p ; hsa-mir-6741-5p ; hsa-mir-6514-3p ; hsa-mir-7977 ; hsa-mir-4727-3p ; hsa-mir-6866-5p ; hsa-mir-6748-5p ; hsa-mir-877-5p ; hsa-mir-550a-5p ; hsa-mir-550a-3-5p ; hsa-mir-6811-3p ; hsa-mir-1271-3p ; hsa-mir-214-5p ; hsa-mir-5690 ; hsa-mir-20b-3p ; hsa-mir-5588-3p ; hsa-mir-1296-3p ; hsa-mir-374c-3p ; hsa-mir-548s ; hsa-mir-3926 ; hsa-mir-3190-5p ; hsa-mir-6849-3p ; hsa-mir-3675-3p ; hsa-mir-6771-3p ; hsa-mir-548c-3p ; hsa-mir-4786-5p ; hsa-mir-129-5p ; hsa-mir-3688-3p ; hsa-mir-4496 ; hsa-mir-5093 ; hsa-mir-651-3p ; hsa-mir-6885-3p
Nearest miRNA
hsa-mir-1286/Upstream/21333; hsa-let-7a-3/Downstream/1525768;
Nearest TSS
ENST00000624155/Upstream/38208; ENST00000485599/Downstream/198531;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/561311, chr22-CpG: 109/Downstream/197831
Upstream sequence
TTCTTTTTGAACTTTTATTCCTGTCATTTATATGACAGAAGACATACCACAGAAATTTTGGTTGTTCATTATTAATTTACACAGAAAAGCAGTTACAATC
Downstream sequence
TACATTTCAGAGTAACACTGGGCTTACTGTTAGATATTTCCCCATTTTCAGAGATGCCTATAATACGGAAACCATTGCTAATAATTAATCATATGGGGAT
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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