Basic Information
VIS ID
TVIS30003146
Fusion event
HIV-SPTBN1 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
chr2
Cytoband
p16.2
Reference genome
GRCh37/hg19
Start
54866241/54639104 (Hg38)
End
54866241/54639104 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2D ; FRA2H
Target gene
SPTBN1
miRNAs that regulate target gene
hsa-mir-9-5p ; hsa-mir-215-5p ; hsa-mir-34a-5p ; hsa-mir-192-5p ; hsa-mir-93-5p ; hsa-mir-1301-3p ; hsa-mir-615-3p ; hsa-mir-589-3p ; hsa-mir-193b-3p ; hsa-mir-423-3p ; hsa-mir-331-3p ; hsa-mir-195-5p ; hsa-mir-26a-5p ; hsa-let-7e-5p ; hsa-let-7a-5p ; hsa-mir-145-5p
Nearest miRNA
hsa-mir-1301/Upstream/789899; hsa-mir-10b/Downstream/1343863;
Nearest TSS
ENST00000437798/Upstream/80710; ENST00000496323/Downstream/13414;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/9754, chr2-CpG: 182/Downstream/84153
Nearest cancer related gene
SPTBN1(TSG, No orient, 0)
Upstream sequence
CTAAACTATGAAGCTTAGGGTCTGTCAACTTTAAGCACCACATTGATGAATCTAGGTCTCTGGGGGATTTGCCCGGAGCCAGACAGGCTGAAGACAGGAG
Downstream sequence
TGCCTCTTCTAAGTGACACGCAAGCATTAGTAACCCATTTGAGTAGGATACTCACTTACAGAGGCATTCATGTGCCAAGACAGGGCATAGAAGAGAGTAA
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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