VISDB - VIS Detail

Basic Information

VIS ID

TVIS30014478

Fusion event

HIV-RUNX3 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

p36.11

Reference genome

GRCh37/hg19

Start

25242557/24916066 (Hg38)

End

25242615/24916066 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA1A

Target gene

RUNX3

miRNAs that regulate target gene

hsa-mir-532-5p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-301a-3p ; hsa-mir-148b-3p ; hsa-mir-93-5p ; hsa-mir-148a-3p ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-218-5p ; hsa-mir-5011-3p ; hsa-mir-6894-5p ; hsa-mir-765 ; hsa-mir-7154-3p ; hsa-mir-766-5p ; hsa-mir-133a-5p ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-4490 ; hsa-mir-4802-5p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-4796-3p ; hsa-mir-3609 ; hsa-mir-548ah-5p ; hsa-mir-519d-3p ; hsa-mir-526b-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-6753-3p ; hsa-mir-7107-3p ; hsa-mir-20b-3p ; hsa-mir-3137 ; hsa-mir-6803-5p ; hsa-mir-6751-5p ; hsa-mir-615-5p ; hsa-mir-7110-5p ; hsa-mir-6842-5p ; hsa-mir-6752-5p ; hsa-mir-6835-5p ; hsa-mir-6887-5p ; hsa-mir-4697-5p ; hsa-mir-6795-5p ; hsa-mir-4488 ; hsa-mir-7111-5p ; hsa-mir-1237-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-3175 ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-4731-5p ; hsa-mir-6805-5p ; hsa-mir-637 ; hsa-mir-495-3p ; hsa-mir-4295 ; hsa-mir-375 ; hsa-mir-3180-3p ; hsa-mir-3180 ; hsa-mir-3196 ; hsa-mir-6816-5p

Nearest miRNA

hsa-mir-12136/Upstream/986919; hsa-mir-101-1/Downstream/3279;

Nearest TSS

ENST00000473358/Upstream/170657; ENST00000456316/Downstream/12732;

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/7750, chr1-CpG: 357/Downstream/12970

Nearest cancer related gene

RUNX3(TSG, No orient, 0)

Upstream sequence

ACAGGCAGGAAGCCACCAAGCCAGCCTTCAAACCCAGCTGGCCACCTGGCTGCAGGCCGGGCACGCTCTGCAGGGCACCAGAGGGGAACGACCCGGCCAC

Downstream sequence

GCCCCTACTCCCACTTCACCCCACAGCGGGCTCAGATTTCAGAGGGTCGGAGGTGGCAAAACAGGAAAAAAGCCGGGAAAGGAAGTCCAGGAGCACAAAA

Target sequence

AGAACCCACAGCCGGCCTCAGGGATCTACAGATTCCCAGTCCTTGGCTCCCAGGACCA

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.