VISDB Viral Integration Site DataBase

VIS ID

TVIS44016223

Fusion event

HTLV-1-CLCN3 integration

Validated

No

Detection method

HTS

Data source

download(RID)

Sample type

Disease

HTLV-1 associated myelopathy/tropical spastic paraparesis (HAM/TSP)

Quality evaluation

Normal

Reported year

2017

PubMed ID

Virus name

HTLV-1

Reference genome

Not given

Chromosome

chr4

Cytoband

q33

Reference genome

Start

End

170575266/169654115 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-15a-5p ; hsa-mir-335-5p ; hsa-mir-148b-3p ; hsa-mir-548b-3p ; hsa-mir-570-5p ; hsa-mir-548m ; hsa-mir-548ag ; hsa-mir-548ai ; hsa-mir-548ba ; hsa-mir-4282 ; hsa-mir-183-3p ; hsa-mir-130a-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-454-3p ; hsa-mir-301b-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-4671-3p ; hsa-mir-3201 ; hsa-mir-573 ; hsa-mir-3185 ; hsa-mir-3616-5p ; hsa-mir-4635 ; hsa-mir-5582-3p ; hsa-mir-195-3p ; hsa-mir-16-2-3p ; 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-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-3591-5p ; hsa-mir-4473 ; hsa-mir-539-5p ; hsa-mir-4484 ; hsa-mir-6768-3p ; hsa-mir-548an ; hsa-mir-1299 ; hsa-mir-206 ; hsa-mir-3182 ; hsa-mir-3668 ; hsa-mir-4782-5p ; hsa-mir-516b-5p ; hsa-mir-5706 ; hsa-mir-6128 ; hsa-mir-613 ; hsa-mir-875-3p

Nearest miRNA

hsa-mir-12113/Upstream/4267778; hsa-mir-1305/Downstream/1532069;

Nearest TSS

Nearest CpG islands

None/Target, chr4-CpG: 46/Upstream/33456, chr4-CpG: 38/Downstream/103678

Upstream sequence

tgtcccaacatcaattactagaaaacaattttttacccactcttgtacagtgccacctctgatacatatatgaagggctcattatatataggagggccta

Downstream sequence

tttctagactccccattttgtactattggtttTTCATCCTGATAATGGTTGTGTGTctttttcttctctttttcccaattcttctccgtctcctttcctt