VISDB - VIS Detail

Basic Information

VIS ID

TVIS30016092

Fusion event

HIV-XPNPEP3 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

chr22

Cytoband

q13.2

Reference genome

GRCh37/hg19

Start

41265938/40869934 (Hg38)

End

41266111/40869934 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA22A

Target gene

XPNPEP3

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-191-3p ; hsa-mir-3159 ; hsa-mir-6514-3p ; hsa-mir-6894-3p ; hsa-mir-298 ; hsa-mir-8082 ; hsa-mir-4534 ; hsa-mir-1827 ; hsa-mir-1273f ; hsa-mir-219b-3p ; hsa-mir-4649-3p ; hsa-mir-6746-5p ; hsa-mir-1247-3p ; hsa-mir-4802-5p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-377-3p ; hsa-mir-4275 ; hsa-mir-4262 ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p ; hsa-mir-8485 ; hsa-mir-6741-5p ; hsa-mir-7977 ; hsa-mir-143-5p ; hsa-mir-5787 ; hsa-mir-4505 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-5589-5p ; hsa-mir-6499-3p ; hsa-mir-6776-5p ; hsa-mir-5693 ; hsa-mir-4653-3p ; hsa-mir-642a-5p ; hsa-mir-1470 ; hsa-mir-4667-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-761 ; hsa-mir-6818-3p ; hsa-mir-4684-5p ; hsa-mir-593-3p ; hsa-mir-5699-3p ; hsa-mir-6895-3p ; hsa-mir-4421 ; hsa-mir-339-5p ; hsa-mir-10b-5p ; hsa-mir-6732-3p ; hsa-mir-10a-5p ; hsa-mir-619-5p ; hsa-mir-6778-3p ; hsa-mir-150-5p ; hsa-mir-6814-5p ; hsa-mir-5697 ; hsa-mir-575 ; hsa-mir-4676-5p ; hsa-mir-6858-3p ; hsa-mir-562 ; hsa-mir-455-3p

Nearest miRNA

hsa-mir-1286/Upstream/55976; hsa-let-7a-3/Downstream/222579;

Nearest TSS

ENST00000624155/Upstream/7668; ENST00000476110/Downstream/81413;

Nearest CpG islands

None/Target, chr22-CpG: 279/Upstream/12698, chr22-CpG: 101/Downstream/80698

Nearby gene

XPNPEP3(No orient, 7153)

Upstream sequence

AGCAAACACATTGTAGAAAAAGCAATCAGGTTTTCAAGGAAAATTAATTGTTCTTTCTGCCATAAGAAATTAAATATGTATTTGCCATATAAGCATATAT

Downstream sequence

CACAAGAAATCAGAGTTTTTCAAAGCTGTAAGGTAAGCTTAATAGCAACCCAGTTGGTATTAATTTTAGTATTTATCTACCCTATCAACCTACCTGTAGA

Target sequence

ATTACTAATGGAAATTTACCTTTAGAAATATGTTCCTTTTTCACTATCCCCACTCAGTGAATGATACCAGTATGTTTCTCAGTGAGGGCTTCCTTTTGCTGATTTTTCATCAGACTCGAATTCCTGCTGGGAAGTCGGCTGAAACTAAGGAAATGCAGCTCACCACTGAAACC

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.