VISDB Viral Integration Site DataBase

VIS ID

TVIS44018256

Fusion event

HTLV-1-RBL1 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

chr20

Cytoband

q11.23

Reference genome

Start

End

35663311/37034908 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-580-3p ; hsa-mir-526b-5p ; hsa-mir-3646 ; hsa-mir-3662 ; hsa-mir-6806-5p ; hsa-mir-5685 ; hsa-mir-4690-3p ; hsa-mir-4717-5p ; hsa-mir-449c-5p ; hsa-mir-34b-5p ; hsa-mir-2682-5p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-6815-3p ; hsa-mir-6882-3p ; hsa-mir-22-3p ; hsa-mir-646 ; hsa-mir-892b ; hsa-mir-193b-3p ; hsa-mir-193a-3p ; hsa-mir-5089-5p ; hsa-mir-6878-3p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-6778-3p ; hsa-mir-4707-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-212-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-186-3p ; hsa-mir-6838-3p ; hsa-mir-6507-3p ; hsa-mir-150-5p ; hsa-mir-5698 ; hsa-mir-8057 ; hsa-mir-143-5p ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-6722-5p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-6499-3p ; hsa-mir-5693 ; hsa-mir-6813-3p

Nearest miRNA

hsa-mir-103a-2/Upstream/1580811; hsa-mir-1-1/Downstream/1481655;

Nearest TSS

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/82860, chr20-CpG: 57/Downstream/60639

Nearest cancer related gene

RBL1(TSG, No orient, 0)

Upstream sequence

gaggatttatagggcagtgaaactactctgtatggagctatagtgacagatacatgtcattatacgttctcaaaatcaataaactattcaccaagagtga

Downstream sequence

accctaatgtaaactatgggcattgggtaatgtgtcagtaatgtaggttcatcaactgtaacaaatgtagcattctggtgtggaatactgataatgaggg