Basic Information
VIS ID
TVIS30007001
Fusion event
HIV-NTN1 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
chr17
Cytoband
p13.1
Reference genome
GRCh37/hg19
Start
8988170/9084853 (Hg38)
End
8988170/9084853 (Hg38)
Orient
+
Location type
Intronic
Target gene
NTN1
miRNAs that regulate target gene
hsa-mir-148b-3p ; hsa-mir-1296-5p ; hsa-mir-423-3p ; hsa-mir-486-3p ; hsa-mir-6780b-5p ; hsa-mir-4271 ; hsa-mir-4725-3p ; hsa-mir-7106-5p ; hsa-mir-765 ; hsa-mir-2467-3p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6805-5p ; hsa-mir-6783-5p ; hsa-mir-4739 ; hsa-mir-4756-5p ; hsa-mir-1321 ; hsa-mir-4779 ; hsa-mir-6873-5p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-4749-3p ; hsa-mir-4313 ; hsa-mir-324-3p ; hsa-mir-1913 ; hsa-mir-6887-3p ; hsa-mir-361-3p ; hsa-mir-6769a-3p
Nearest miRNA
hsa-mir-1253/Upstream/897849; hsa-mir-10226/Downstream/2997046;
Nearest TSS
ENST00000595228/Upstream/63311; ENST00000436734/Downstream/78082;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/61250, chr17-CpG: 23/Downstream/30826
Upstream sequence
tgattctcctgcctcaccctcccaaggagctgggactataggcacccgccaccatgcctggctatttttttgtatttttagtagagatggggtttcactg
Downstream sequence
tgttagccaggatggtctcgatctcctgacctcgtgatctgcctgcctcggcctcccaaagtgctggattacaggcgtgagccaccgtgcctgaccCCGT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate