Basic Information
VIS ID
TVIS30005928
Fusion event
HIV-RSF1 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
chr11
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
77409053/77698008 (Hg38)
End
77409053/77698008 (Hg38)
Orient
-
Location type
Intronic
Target gene
RSF1
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-21-5p ; hsa-mir-218-5p ; hsa-mir-493-5p ; hsa-mir-526b-5p ; hsa-mir-561-5p ; hsa-mir-3171 ; hsa-mir-4635 ; hsa-mir-6830-5p ; hsa-mir-4262 ; hsa-mir-410-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-651-3p ; hsa-mir-8485 ; hsa-mir-5582-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-4789-5p ; hsa-mir-466 ; hsa-mir-4764-3p ; hsa-mir-6512-5p ; hsa-mir-4643 ; hsa-mir-618 ; hsa-mir-4789-3p ; hsa-mir-4482-3p ; hsa-mir-766-3p ; hsa-mir-138-2-3p ; hsa-mir-4267 ; hsa-mir-508-5p
Nearest miRNA
hsa-mir-10392/Upstream/2362822; hsa-let-7a-2/Downstream/1704014;
Nearest TSS
ENST00000527297/Upstream/20947; ENST00000531855/Downstream/520;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/60094, chr11-CpG: 16/Downstream/115588
Nearest cancer related gene
RSF1(OG, No orient, 0)
Upstream sequence
ACTTACATGTTTTTATAGGAAGGCAGTAAGGCCTTCAGGCCTAATTTACTTAAAGCTGGCACTTCAAAAATATCATTATAAAGTTACCTATTTATCTTAC
Downstream sequence
CTATTTATCTATCCAGCCATCCATgagacagggtcttgctatgctgcccaggctgcatttgaattactgggctcaaatcctcctacctcagccacctgag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate