VISDB - VIS Detail

Basic Information

VIS ID

TVIS30014526

Fusion event

HIV-PRPF38A integration

Validated

Yes

Detection method

LM PCR

Data source

Curated

Sample type

PBMC

Disease

HIV-infected disease (HID)

Quality evaluation

Good

Reported year

2014

PubMed ID

24968937

Virus Sequence

Virus name

HIV

Reference genome

Not given

Host Sequence

Chromosome

chr1

Cytoband

p32.3

Reference genome

GRCh37/hg19

Start

52872112/52406440 (Hg38)

End

52871955/52406440 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA1B

Target gene

PRPF38A

miRNAs that regulate target gene

hsa-mir-192-5p ; hsa-mir-215-5p ; hsa-mir-31-3p ; hsa-mir-145-3p ; hsa-mir-6893-3p ; hsa-mir-634 ; hsa-mir-370-3p ; hsa-mir-4279 ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-325 ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-122-3p ; hsa-mir-4258 ; hsa-mir-5089-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-150-5p ; hsa-mir-6814-5p ; hsa-mir-6504-3p ; hsa-mir-4438 ; hsa-mir-582-3p ; hsa-mir-335-3p ; hsa-mir-452-3p ; hsa-mir-216b-5p ; hsa-mir-216a-5p ; hsa-mir-106a-3p ; hsa-mir-122-5p ; hsa-mir-1267 ; hsa-mir-1304-3p ; hsa-mir-1307-3p ; hsa-mir-130a-3p ; hsa-mir-130b-3p ; hsa-mir-301a-3p ; hsa-mir-301b-3p ; hsa-mir-3135b ; hsa-mir-3652 ; hsa-mir-3664-5p ; hsa-mir-3666 ; hsa-mir-367-5p ; hsa-mir-4294 ; hsa-mir-4295 ; hsa-mir-4423-5p ; hsa-mir-4430 ; hsa-mir-454-3p ; hsa-mir-4634 ; hsa-mir-4638-5p ; hsa-mir-4639-3p ; hsa-mir-504-3p ; hsa-mir-6501-5p ; hsa-mir-652-3p ; hsa-mir-6794-3p ; hsa-mir-744-3p

Nearest miRNA

hsa-mir-12136/Upstream/570038; hsa-mir-101-1/Downstream/1647639;

Nearest TSS

ENST00000473358/Upstream/1812; ENST00000607321/Downstream/24641;

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/1807, chr1-CpG: 115/Downstream/146146

Upstream sequence

CTCAGTTTTGGTAATTTTTCCCTGAAAAAGGATTTCACAGATTCACTAAATACATATTAAGCAAAAGTGAGTGCCTGATATGTTGGTAGGCACTGGACGC

Downstream sequence

TCAGGGGTGAAAATCAAACAACAAAAGGTGGTGGTTAAGAGGTGTAagatctgggttcacatccagattctgttgcccattaactatgacattggagagg

Target sequence

accctgccAAGTTTGTATTTTATCTGTTCTGATTGTATTAATCTTCTACTTTACTTTCTCAGTTTTGGTAATTTTTCCCTGAAAAAGGATTTCACAGATTCACTAAATACATATTAAGCAAAAGTGAGTGCCTGATATGTTGGTAGGCACTGGACGC

Reference

Maldarelli, F., et al. Specific HIV integration sites are linked to clonal expansion and persistence of infected cells. Science,2014, 345(6193): 179-183.