Basic Information
VIS ID
TVIS30003648
Fusion event
HIV-SCFD2 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
chr4
Cytoband
q12
Reference genome
GRCh37/hg19
Start
54177009/53310842 (Hg38)
End
54177009/53310842 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA4B
Target gene
SCFD2
Nearest miRNA
hsa-mir-12113/Upstream/598095; hsa-mir-1243/Downstream/7611777;
Nearest TSS
ENST00000502981/Upstream/365153; ENST00000510668/Downstream/55099;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/448009, chr4-CpG: 43/Downstream/54699
Upstream sequence
ATGATGTTTATTTCTCTTGGTGCTCATAACGTTTTAACATGAATTTACCTTGTACTGAGAAATTTTATATTTAAGATATGAGGTTTCAATCATGGGATCC
Downstream sequence
CTCCCCATAAATTTAAATACAAGGGAATCGTGAGTCTATAATTAAAATCTGTTTAACATCTCAAAAATACTAGAAGCCTTTATCACAGTCAGAAAAATTT
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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