Basic Information
VIS ID
TVIS30003683
Fusion event
HIV-NDST4 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
q26
Reference genome
GRCh37/hg19
Start
115786130/114864974 (Hg38)
End
115786130/114864974 (Hg38)
Orient
+
Location type
Intronic
Target gene
NDST4
miRNAs that regulate target gene
hsa-mir-526b-5p ; hsa-mir-200a-3p ; hsa-mir-141-3p ; hsa-mir-548l ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-548n ; hsa-mir-302c-5p
Nearest miRNA
hsa-mir-12113/Upstream/208120; hsa-mir-1305/Downstream/10642285;
Nearest TSS
ENST00000502981/Upstream/242607; ENST00000604093/Downstream/248803;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/265198, chr4-CpG: 21/Downstream/1734301
Nearest cancer related gene
NDST4(TSG, No orient, 0)
Upstream sequence
ACAGCTTCAAGAGTACTGCTTTAGACACAAAATGTTTCTAATTTACCCTAAATGTCTATCTATTCTTCACCATATTATACTCATGTTTATTTAAGTAAGT
Downstream sequence
TAATACTACTGGTATTTTCCCATGAGGTAGTCTCATAGTAAAACTGACCCCAAGAGAAGGTGGCATATTTACTTTGTAGCGCTATCAtttttttttcttt
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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