Basic Information
VIS ID
TVIS30009015
Fusion event
HIV-CCHCR1 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
chr6
Cytoband
p21.33
Reference genome
GRCh37/hg19
Start
31121119/31153342 (Hg38)
End
31121119/31153342 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
CCHCR1
miRNAs that regulate target gene
hsa-mir-615-3p ; hsa-mir-346
Nearest miRNA
hsa-mir-3143/Upstream/262370; hsa-mir-10398/Downstream/201882;
Nearest TSS
ENST00000381078/Upstream/7883; ENST00000496421/Downstream/1409;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/197556, chr6-CpG: 49/Downstream/4966
Upstream sequence
ggattacaggcatgagccactgtgcctggccTAGCTTCTTGTTTCTAAGTTTCTTTCATAAATCtcctttgtccattttctgattggattgctggtcttt
Downstream sequence
cccttaccaatttctaggcacacattttatattagggatatTACCCTTTTCTTGTGATCTGAGCTATAAATATAGCTTTTTTTTTTCTTTTTGGCTAttc
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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