VISDB - VIS Detail

Basic Information

VIS ID

TVIS30001018

Fusion event

HIV-FMNL3 integration

Validated

Yes

Detection method

QiaQuick PCR and Sequencing

Data source

Curated

Sample type

PBMC

Disease

HIV-infected disease (HID)

Quality evaluation

Good

Reported year

2014

PubMed ID

25011556

Virus Sequence

Virus name

HIV

Reference genome

Not given

Host Sequence

Chromosome

chr12

Cytoband

q13.12

Reference genome

GRCh37/hg19

Start

50071574/49677791 (Hg38)

End

50072066/49677791 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA12A

Target gene

FMNL3

miRNAs that regulate target gene

hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-125b-5p ; hsa-mir-182-5p ; hsa-mir-335-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-5579-3p ; hsa-mir-2467-3p ; hsa-mir-98-5p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7d-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-4468 ; hsa-mir-4257 ; hsa-mir-196b-5p ; hsa-mir-196a-5p ; hsa-mir-4453 ; hsa-mir-4538 ; hsa-mir-2278 ; hsa-mir-8085 ; hsa-mir-6090 ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-564 ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6746-5p ; hsa-mir-3622a-5p ; hsa-mir-6873-5p ; hsa-mir-3915 ; hsa-mir-7160-5p ; hsa-mir-3928-3p ; hsa-mir-1537-3p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-6818-3p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-6845-3p ; hsa-mir-5699-3p ; hsa-mir-4421 ; hsa-mir-6748-3p ; hsa-mir-6838-3p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p ; hsa-mir-211-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-3649 ; hsa-mir-4733-3p ; hsa-mir-6079 ; hsa-mir-671-5p ; hsa-mir-6753-5p ; hsa-mir-6828-5p ; hsa-mir-7113-5p

Nearest miRNA

hsa-mir-1244-3/Upstream/905754; hsa-let-7i/Downstream/556351;

Nearest TSS

ENST00000382841/Upstream/9237; ENST00000548589/Downstream/29429;

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/54108, chr12-CpG: 116/Downstream/28868

Target sequence

GGTAACATCTAATTAGACTGTGGAGTCAAGTAAGGTGTAAGACTTCCTGAAAGAAATGTCACAGGATTTATTTTATTATTATTATTTTTGAGATGGAGTCTCGCTCTGTTGCCTAGGCTGGAGTGCAGTGGCACGATCTTGGCTCTCCGCAAGCTCTGCGTCCCAGGTTCACACCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGACTACACACATCCGCCACCATACCCGGCTAATTTTTTGTATTTTTAGT

Reference

Wagner, T. A., et al. Proliferation of cells with HIV integrated into cancer genes contributes to persistent infection. Science,2014, 345(6196): 570-573.