Basic Information
VIS ID
TVIS30001772
Fusion event
HIV-SRGN 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
chr10
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
70820305/69060549 (Hg38)
End
70820305/69060549 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
SRGN
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-661 ; hsa-mir-1254 ; hsa-mir-3116 ; hsa-mir-4317 ; hsa-mir-4761-5p ; hsa-mir-7978 ; hsa-mir-6514-3p ; hsa-mir-6894-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-1265/Upstream/1657139; hsa-mir-107/Downstream/2730198;
Nearest TSS
ENST00000439456/Upstream/52894; ENST00000462445/Downstream/27557;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/70971, chr10-CpG: 82/Downstream/63358
Nearby gene
SRGN(No orient, 27523)
Upstream sequence
ctctagaaaaaattaaattaaaatattagccaggtgtattgctggcatgtgtctgcagtcccagcttcttaagaggctgaggtgggaggctcacttgagc
Downstream sequence
tcaggaggtccaggctgcaatgaagtgcgattgcaccactgcactccagcctgggcaacacagcaagatcctgcctcaaaaaaaaaaaagaaaggaaaat
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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