Basic Information
VIS ID
TVIS30008777
Fusion event
HIV-ZSWIM6 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
q12.1
Reference genome
GRCh37/hg19
Start
60789145/61493318 (Hg38)
End
60789145/61493318 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5H
Target gene
ZSWIM6
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-502-3p ; hsa-mir-324-3p ; hsa-mir-18a-5p ; hsa-mir-125b-5p ; hsa-mir-125a-5p ; hsa-mir-567 ; hsa-mir-580-3p ; hsa-mir-605-5p ; hsa-mir-670-5p ; hsa-mir-297 ; hsa-mir-1261 ; hsa-mir-4319 ; hsa-mir-4324 ; hsa-mir-4251 ; hsa-mir-155-5p ; hsa-mir-568 ; hsa-mir-1180-3p ; hsa-mir-1279 ; hsa-mir-6074 ; hsa-mir-374a-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-345-3p ; hsa-mir-645 ; hsa-mir-650 ; hsa-mir-4266 ; hsa-mir-3612 ; hsa-mir-3622a-5p ; hsa-mir-4695-5p ; hsa-mir-6069 ; hsa-mir-3692-3p ; hsa-mir-4645-3p ; hsa-mir-4732-3p ; hsa-mir-4781-3p ; hsa-mir-4779
Nearest miRNA
hsa-mir-10397/Upstream/1789615; hsa-mir-103a-1/Downstream/10676149;
Nearest TSS
ENST00000502646/Upstream/161045; ENST00000511474/Downstream/194581;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/159336, chr5-CpG: 74/Downstream/132389
Upstream sequence
TAACAGGCCTGTCCATTTTCTTTTACCATTGCAAAAACAACCCCATCTGAGTGAGTAGAAGTATGCTGCTGCTCTTTATATAAAAAACTTAAGTGAGAGA
Downstream sequence
GAACCTTTATGCAATTACTAATTTATCTCAAAAATTGAAGGACttgcacaactgcgaatatactaaaaaccattgaattgtacgttttaaattggtgaat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate