VISDB - VIS Detail

Basic Information

VIS ID

TVIS30014800

Fusion event

HIV-KDM2A 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

chr11

Cytoband

q13.2

Reference genome

GRCh37/hg19

Start

66999189/67231718 (Hg38)

End

66999461/67231718 (Hg38)

Orient

Location type

Exonic

Fragile sites / regions

FRA11H

Target gene

KDM2A

miRNAs that regulate target gene

hsa-mir-124-3p ; hsa-mir-16-5p ; hsa-mir-1226-3p ; hsa-mir-296-3p ; hsa-mir-769-5p ; hsa-mir-92b-3p ; hsa-mir-29b-3p ; hsa-mir-137 ; hsa-let-7i-3p ; hsa-mir-106b-3p ; hsa-mir-1273h-5p ; hsa-mir-1294 ; hsa-mir-1539 ; hsa-mir-185-5p ; hsa-mir-30b-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3122 ; hsa-mir-3134 ; hsa-mir-3150b-3p ; hsa-mir-3654 ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-377-5p ; hsa-mir-3913-5p ; hsa-mir-3939 ; hsa-mir-4306 ; hsa-mir-4464 ; hsa-mir-4477b ; hsa-mir-450a-1-3p ; hsa-mir-4534 ; hsa-mir-4644 ; hsa-mir-4683 ; hsa-mir-4693-3p ; hsa-mir-4695-3p ; hsa-mir-4748 ; hsa-mir-4784 ; hsa-mir-4802-5p ; hsa-mir-5192 ; hsa-mir-574-5p ; hsa-mir-6086 ; hsa-mir-6513-5p ; hsa-mir-655-5p ; hsa-mir-6731-5p ; hsa-mir-6740-5p ; hsa-mir-6746-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6788-5p ; hsa-mir-6878-5p ; hsa-mir-6894-5p ; hsa-mir-7154-3p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-8082 ; hsa-mir-8085 ; hsa-mir-887-5p

Nearest miRNA

hsa-mir-10392/Upstream/186010; hsa-let-7a-2/Downstream/258527;

Nearest TSS

ENST00000527297/Upstream/14175; ENST00000517637/Downstream/47;

Nearest CpG islands

None/Target, chr11-CpG: 30/Upstream/111859, chr11-CpG: 17/Downstream/18418

Nearest cancer related gene

KDM2A(OG, No orient, 0)

Upstream sequence

CGAGAACCCCGACGCTTGAGCAGCAGGCGTTCTGTCCTCACTAGCCCTGTAGCGAATGGAGTCAACCTGGATTATGATGGACTGGGCAAAACCTGCCGAA

Downstream sequence

CTGATCCAGCTATGGCAGTCAGCTTCCAGATTCAGAGGGAGAAAATATAGGAATTTTGGGTGATCTCTGGTTCAGTCAGAGAGAAGTTAATATGCATGTG

Target sequence

GTCTTCCAAGTCTGAAGAAAACTTTGGCTGGGGACTCATCTTCTGACTGTAGCCGGGGCTCCCACAATGGACAAGTGTGGGATCCCCAGTGTGCTCCCCGAAAGGACAGGCAAGTGCATCTGACCCATTTTGAGCTTGAAGGCCTTCGCTGCCTTGTAGATAAGTTGGAGTCTCTGCCACTGCACAAGAAATGTGTCCCCACAGGGATAGAAGATGAAGATGCTCTCATTGCTGATGTAAAGGTAAGGGTTTGAT

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.