Basic Information
VIS ID
TVIS30004453
Fusion event
HIV-TFCP2 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
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
51532377/51138594 (Hg38)
End
51532377/51138594 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
TFCP2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-331-3p ; hsa-mir-3941 ; hsa-mir-382-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4719 ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-4477b ; hsa-mir-651-3p ; hsa-mir-5687 ; hsa-mir-323b-3p ; hsa-mir-4773 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-4684-3p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-2467-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-1827 ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-1247-3p ; hsa-mir-4257 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-660-5p ; hsa-mir-105-5p ; hsa-mir-7853-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/904382; hsa-let-7i/Downstream/1760295;
Nearest TSS
ENST00000382841/Upstream/34663; ENST00000549041/Downstream/34199;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/54825, chr12-CpG: 38/Downstream/34303
Nearest cancer related gene
TFCP2(OG, No orient, 0)
Upstream sequence
TTCAGGAAAATCCTGAAAGTACCAGAATAGTTAGTCCTATGAAATGGTAAATAGGCTCTAACCATCTCTCCTCTTTTATGCTAAAAGTGATAGGACTTAC
Downstream sequence
GAACATTTCTCCTCCTTCAGACCACAtttcttttttcttttgagaccaagtttcgctctgttgcccaggctggagtgcaatggtgagaggctggagtgca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate