Basic Information
VIS ID
TVIS30004845
Fusion event
HIV-PACSIN2 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
43372549/42976543 (Hg38)
End
43372549/42976543 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA22A
Target gene
PACSIN2
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-193b-3p ; hsa-mir-7161-5p ; hsa-mir-8087 ; hsa-mir-548u ; hsa-mir-548g-3p ; hsa-mir-548av-3p ; hsa-mir-3691-5p ; hsa-mir-6124 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-6849-5p ; hsa-mir-3681-5p ; hsa-mir-4433b-3p
Nearest miRNA
hsa-mir-1281/Upstream/1053246; hsa-let-7a-3/Downstream/2224411;
Nearest TSS
ENST00000624155/Upstream/16644; ENST00000443063/Downstream/25897;
Nearest CpG islands
None/Target, chr22-CpG: 279/Upstream/106266, chr22-CpG: 113/Downstream/37872
Upstream sequence
ACAAGTCCACAGGATCATCGATTTGAGGCAACAGTGCTAAATGCAGGCCTCCCTGTCATGCCTGGAGTGTCACAGAATGGCCACTTAACAGGCTTGCTGC
Downstream sequence
TGGGTGTTGGCACCTATTTCTGTATTTATGTAGATTCTATGACTGTTTTAGATTTTCATTAAGATTAGCGGCAGAATTGTATTACATGCCTTTTAAATAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate