VISDB - VIS Detail

Basic Information

VIS ID

TVIS30016417

Fusion event

HIV-BTBD9 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

chr6

Cytoband

p21.2

Reference genome

GRCh37/hg19

Start

38543425/38575649 (Hg38)

End

38543176/38575649 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA6H

Target gene

BTBD9

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-30e-5p ; hsa-mir-149-5p ; hsa-mir-26a-5p ; hsa-let-7b-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-5692a ; hsa-mir-574-5p ; hsa-mir-6818-5p ; hsa-mir-6867-5p ; hsa-mir-6731-5p ; hsa-mir-8085 ; hsa-mir-4644 ; hsa-mir-4306 ; hsa-mir-185-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6127 ; hsa-mir-6129 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6760-5p ; hsa-mir-6873-5p ; hsa-mir-4719 ; hsa-mir-1178-3p ; hsa-mir-369-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-6781-5p ; hsa-mir-4268 ; hsa-mir-4660 ; hsa-mir-766-3p ; hsa-mir-7112-5p ; hsa-mir-338-3p ; hsa-mir-4530 ; hsa-mir-3918 ; hsa-mir-6736-3p ; hsa-mir-3065-3p ; hsa-mir-6871-3p ; hsa-mir-6749-3p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-600 ; hsa-mir-2116-3p ; hsa-mir-5193 ; hsa-mir-4700-3p ; hsa-mir-374c-5p ; hsa-mir-4643 ; hsa-mir-466 ; hsa-mir-4789-3p ; hsa-mir-655-3p

Nearest miRNA

hsa-mir-1236/Upstream/1020227; hsa-mir-10398/Downstream/498665;

Nearest TSS

ENST00000381078/Upstream/93957; ENST00000373278/Downstream/18686;

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/755875, chr6-CpG: 77/Downstream/63780

Upstream sequence

ACAATGAATAATTGTGAAGATAAGAAACACCAAGACATCCTCAGTTAATCTACAGAGACATATTCTTAGGTTCATTTTTAAATACTATCAAAATTATAAC

Downstream sequence

CTAGTAAAAAAGACAGTTTACTAAGGAAAGTAGTAATATAATAAAGTGGCTATAATTTTTAAAAAATTCTTATTAACATGGATATCAAGATTCTTTCCTT

Target sequence

gcaaaggacactaaAGAACAAAGCTGACATACAAACGTGCAAATTAACTAACATAATGCAAACTGAACACTTACGTGCTAAGGAAATAAACAATTTATTTGCCCAGTGAAGTTCTTGGAAGAAGTGCAGTTAGAACATTGTTTAGGTAGACAATGAATAATTGTGAAGATAAGAAACACCAAGACATCCTCAGTTAATCTACAGAGACATATTCTTAGGTTCATTTTTAAATACTATCAAAATTATAAC

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.