Basic Information
VIS ID
TVIS30013349
Fusion event
HIV-NDFIP1 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
chr5
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
141499360/142119795 (Hg38)
End
141499360/142119795 (Hg38)
Orient
-
Location type
Intronic
Target gene
NDFIP1
miRNAs that regulate target gene
hsa-mir-221-3p ; hsa-mir-30a-5p ; hsa-mir-378a-3p ; hsa-mir-15b-5p ; hsa-mir-196a-5p ; hsa-mir-19b-3p
Nearest miRNA
hsa-mir-10397/Upstream/1471869; hsa-mir-103a-1/Downstream/1560065;
Nearest TSS
ENST00000502646/Upstream/11007; ENST00000505614/Downstream/15935;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/10441, chr5-CpG: 105/Downstream/204389
Upstream sequence
TTGCTTTCTTTTTAAAGTACCTTTAAAGAAAAttttatttagaaataattttaaacttagagaaggttgcaagaatagtataacataacactcatatatc
Downstream sequence
tattaccaaattcatcttagacttattgttaaattttgATTAACAATGAATACAATCCTATAAAAATTGAAAGCGCTACAGATAAAACCCAAGTCCCTTT
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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