VISDB - VIS Detail

Basic Information

VIS ID

TVIS30016232

Fusion event

HIV-CDKL2 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

chr4

Cytoband

q21.1

Reference genome

GRCh37/hg19

Start

76522819/75597635 (Hg38)

End

76522703/75597635 (Hg38)

Orient

Location type

Intronic

Target gene

CDKL2

miRNAs that regulate target gene

hsa-mir-26b-5p ; hsa-mir-203a-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-4791 ; hsa-mir-431-5p ; hsa-mir-3201 ; hsa-mir-190b ; hsa-mir-190a-5p ; hsa-mir-4635 ; hsa-mir-1273g-3p ; hsa-mir-181a-2-3p ; hsa-mir-654-3p ; hsa-mir-1243 ; hsa-mir-4719 ; hsa-mir-6750-3p ; hsa-mir-548x-3p ; hsa-mir-548j-3p ; hsa-mir-548aq-3p ; hsa-mir-548am-3p ; hsa-mir-548aj-3p ; hsa-mir-548ah-3p ; hsa-mir-548ae-3p ; hsa-mir-1305 ; hsa-mir-142-5p ; hsa-mir-335-3p ; hsa-mir-3973 ; hsa-mir-520g-3p ; hsa-mir-520h ; hsa-mir-548a-5p ; hsa-mir-548ab ; hsa-mir-548ad-5p ; hsa-mir-548ae-5p ; hsa-mir-548ak ; hsa-mir-548am-5p ; hsa-mir-548ap-5p ; hsa-mir-548aq-5p ; hsa-mir-548ar-5p ; hsa-mir-548as-5p ; hsa-mir-548au-5p ; hsa-mir-548av-5p ; hsa-mir-548ay-5p ; hsa-mir-548b-5p ; hsa-mir-548bb-5p ; hsa-mir-548c-3p ; hsa-mir-548c-5p ; hsa-mir-548d-5p ; hsa-mir-548h-5p ; hsa-mir-548i ; hsa-mir-548j-5p ; hsa-mir-548k ; hsa-mir-548l ; hsa-mir-548o-5p ; hsa-mir-548w ; hsa-mir-548y ; hsa-mir-5590-3p ; hsa-mir-559 ; hsa-mir-607 ; hsa-mir-6499-3p ; hsa-mir-8054

Nearest miRNA

hsa-mir-12113/Upstream/9320707; hsa-mir-1243/Downstream/975933;

Nearest TSS

ENST00000502981/Upstream/495; ENST00000512893/Downstream/32851;

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/82842, chr4-CpG: 56/Downstream/32547

Upstream sequence

TTCTTACATATTCAGAGTCATGGAACACAAAACTGATAACTCTTTCTTCTTTTGGTGTACTTGATATAAGTGGATTGGTGGTGGATTTGAATTACCTTAT

Downstream sequence

CAAGAACAGATCCTGGGTAGTTCACCAGGAAAAGCAAACCTAAGTTAAGTATCCAAATCTCACTTTTCAAATTTTTACTTCATATAAATTTCTACAGACA

Target sequence

AAGAATTCCACTTTTGTTCTTACATATTCAGAGTCATGGAACACAAAACTGATAACTCTTTCTTCTTTTGGTGTACTTGATATAAGTGGATTGGTGGTGGATTTGAATTACCTTAT

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.