Basic Information
VIS ID
TVIS30008931
Fusion event
HIV-SIMC1 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
chr5
Cytoband
q35.2
Reference genome
GRCh37/hg19
Start
175733479/176306476 (Hg38)
End
175733479/176306476 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5G
Target gene
SIMC1
miRNAs that regulate target gene
hsa-mir-1226-3p
Nearest miRNA
hsa-mir-10397/Upstream/1554689; hsa-mir-1229/Downstream/61470;
Nearest TSS
ENST00000502646/Upstream/10353; ENST00000332772/Downstream/6604;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/67452, chr5-CpG: 58/Downstream/54842
Upstream sequence
cccctctgcccgaccaccaccccgtctgggaggtgtgcccaacagctcattgagaacgggccaggatgacaatggcggctttgtggaatagaaaggcggg
Downstream sequence
aaaggtggggaaaagattgagaaatcggatggttgccgtgtctgtgtagaaagaagtagacatgggagagttttcattttgttctgcactaagaaaaatt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate