Basic Information
VIS ID
TVIS30011459
Fusion event
HIV-STAMBPL1 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
q23.31
Reference genome
GRCh37/hg19
Start
90652398/88892641 (Hg38)
End
90652398/88892641 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10D
Target gene
STAMBPL1
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-103a-3p ; hsa-mir-941 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-4633-5p ; hsa-mir-766-3p ; hsa-mir-885-5p ; hsa-mir-6849-3p ; hsa-mir-508-5p ; hsa-mir-6868-3p ; hsa-mir-23c ; hsa-mir-23b-3p ; hsa-mir-23a-3p ; hsa-mir-130a-5p ; hsa-mir-6837-3p ; hsa-mir-4778-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-548p ; hsa-mir-5197-5p
Nearest miRNA
hsa-mir-1265/Upstream/1388687; hsa-mir-107/Downstream/170694;
Nearest TSS
ENST00000439456/Upstream/10558; ENST00000371924/Downstream/8434;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/11775, chr10-CpG: 68/Downstream/97895
Upstream sequence
GCTAACAACTTTGCCAGAATAAGGAGCTCTTCAAGAAAACTCTTTAAAATGGATTGCCAGGGAAAGTTAAGAAGGAAACTTTTTTCTGTTTCTGCCTACT
Downstream sequence
GCATTGAAGAGATTGTCCAGTGCAAAACCAAATGTATGAATACAGCCTCTGCTGTGACATGTTAAACAGTTAAGATTCTTGTGGTTGGAGAACACTGGAG
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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