Basic Information
VIS ID
TVIS30004843
Fusion event
HIV-SREBF2 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
chr22
Cytoband
q13.2
Reference genome
GRCh37/hg19
Start
42241021/41845017 (Hg38)
End
42241021/41845017 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
SREBF2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-877-5p ; hsa-mir-331-3p ; hsa-mir-92a-3p ; hsa-mir-28-5p ; hsa-mir-128-3p ; hsa-mir-342-3p ; hsa-mir-185-5p ; hsa-mir-218-5p ; hsa-mir-5189-3p ; hsa-mir-5692a ; hsa-mir-365a-3p ; hsa-mir-365b-3p ; hsa-mir-6824-5p ; hsa-mir-582-5p ; hsa-mir-101-3p ; hsa-mir-486-3p ; hsa-mir-6825-5p ; hsa-mir-6721-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-4644 ; hsa-mir-4306 ; hsa-mir-4722-5p ; hsa-mir-7112-5p ; hsa-mir-4693-3p ; hsa-mir-3937 ; hsa-mir-4768-3p ; hsa-mir-6504-3p ; hsa-mir-6743-5p ; hsa-mir-4688 ; hsa-mir-6783-5p
Nearest miRNA
hsa-mir-1281/Upstream/591967; hsa-let-7a-3/Downstream/55927;
Nearest TSS
ENST00000624155/Upstream/10352; ENST00000464119/Downstream/28672;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/11037, chr22-CpG: 175/Downstream/64596
Upstream sequence
GGCTTGATTTCCACCCCCACCCCCCACCCCCACAAgagtcctgctctgtcgcccaggctagggtgcagtggcacgatctctgctcactgcgacctctgcc
Downstream sequence
tcctgggttcaagcaattctcctgtctcctgtaatcccgagtagctgggattacaggtgtgtgccactatgccaggctaatttttgtatttttagtaaag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate