Basic Information
VIS ID
TVIS30003442
Fusion event
HIV-SAMM50 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
q13.31
Reference genome
GRCh37/hg19
Start
44379191/43983311 (Hg38)
End
44379191/43983311 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
SAMM50
Nearest miRNA
hsa-mir-1281/Upstream/2060014; hsa-let-7a-3/Downstream/1217643;
Nearest TSS
ENST00000624155/Upstream/8716; ENST00000493621/Downstream/3033;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/27529, chr22-CpG: 26/Downstream/13118
Upstream sequence
TGTGTCCTTGGCTGCCTCTTGGCTGGAAAGATTACACAGAATTTCTCTTGTCATTTAAATTCATTTTTTAGTAATTATCATAATCTAAAATCGGGTTCTA
Downstream sequence
ATATGCTGTTCAATTTTTCAGAAAGTGGATGGGTTTTTATGTAATTAATTTTTAATTCACGCTTTTCATATTATTCAGATATGGTTGGTGAGAGTGTGAC
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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