VISDB - VIS Detail

Basic Information

VIS ID

TVIS44010788

Fusion event

HTLV-1-THEM4 integration

Validated

Detection method

HTS

Data source

download(RID)

Sample type

Nontumor

Disease

Adult T-cell leukemia (ATL)

Quality evaluation

Normal

Reported year

2014

PubMed ID

24735963

Virus Sequence

Virus name

HTLV-1

Reference genome

Not given

Host Sequence

Chromosome

chr1

Cytoband

q21.3

Reference genome

GRCh37/hg19

Start

151862306/151889830 (Hg38)

End

151862306/151889830 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA1F

Target gene

THEM4

miRNAs that regulate target gene

hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-8057 ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-4772-3p ; hsa-mir-1236-3p ; hsa-mir-1304-3p ; hsa-mir-877-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-6890-3p ; hsa-mir-5089-5p ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-7107-5p ; hsa-mir-1234-3p ; hsa-mir-5009-3p ; hsa-mir-512-3p ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; hsa-mir-4796-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-3609 ; hsa-mir-548ah-5p

Nearest miRNA

hsa-mir-101-1/Upstream/343939; hsa-mir-1182/Downstream/1799875;

Nearest TSS

ENST00000473358/Upstream/80; ENST00000432386/Downstream/1610;

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/49781, chr1-CpG: 66/Downstream/19457

Upstream sequence

AAAATAAAAAATGTAACAGAAAGGAGGTTTCCCTGGCAGACATGAGTTGAGTCTGAATCAGCAACAGGGTCAGTTCAGCCCAACACTCAAGTGATTGTGA

Downstream sequence

CTCTAAGCCCCCAAAACTGGCAGTGAGAACCATTAGGGTTCATGAAATCAGATTGTGGGTTGTAACCAGGCttctttttttttttttttttttttgacag

Reference

Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.