VISDB Viral Integration Site DataBase

VIS ID

TVIS44016958

Fusion event

HTLV-1-XKR4 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

chr8

Cytoband

q12.1

Reference genome

Start

End

56152268/55239708 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-335-5p ; hsa-mir-4468 ; hsa-mir-3650 ; hsa-mir-1193 ; hsa-mir-298 ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-2392 ; hsa-mir-7851-3p ; hsa-mir-490-3p ; hsa-mir-4668-5p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-5692b ; hsa-mir-5692c ; hsa-mir-3163 ; hsa-mir-369-3p ; hsa-mir-4282 ; hsa-mir-5582-3p ; hsa-mir-548f-3p ; hsa-mir-548e-3p ; hsa-mir-548az-3p ; hsa-mir-548ar-3p ; hsa-mir-548a-3p ; hsa-mir-335-3p ; hsa-mir-5096 ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-642b-5p ; hsa-mir-3920 ; hsa-mir-4637 ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-6858-3p ; hsa-mir-550b-2-5p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-1227-3p ; hsa-mir-3683 ; hsa-mir-1273c ; hsa-mir-210-5p ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-6810-3p ; hsa-mir-6801-3p ; hsa-mir-6849-3p ; hsa-mir-1273g-3p ; hsa-mir-6769a-3p ; hsa-mir-508-5p ; hsa-mir-196a-3p ; hsa-mir-4790-3p ; hsa-mir-382-3p ; hsa-mir-338-5p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-3616-3p ; hsa-mir-383-3p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-4779 ; hsa-mir-6891-5p ; hsa-mir-3173-3p ; hsa-mir-2053 ; hsa-mir-6868-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-3667-3p ; hsa-mir-6741-3p ; hsa-mir-670-3p ; hsa-mir-3655 ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-4698 ; hsa-mir-8063 ; hsa-mir-3613-5p ; hsa-mir-1912 ; hsa-mir-1295b-5p ; hsa-mir-548ay-3p ; hsa-mir-548at-3p ; hsa-mir-548as-3p ; hsa-mir-548t-3p ; hsa-mir-548ap-3p ; hsa-mir-548aa ; hsa-mir-5698 ; hsa-mir-8057 ; hsa-mir-5001-3p ; hsa-mir-891a-3p ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-24-3p ; hsa-mir-564 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-2276-3p ; hsa-mir-5693 ; hsa-mir-6890-3p ; hsa-mir-6796-3p ; hsa-mir-150-5p ; hsa-mir-186-3p ; hsa-mir-3147 ; hsa-mir-4425 ; hsa-mir-4707-3p ; hsa-mir-520g-3p ; hsa-mir-520h ; hsa-mir-6778-3p

Nearest miRNA

hsa-mir-124-1/Upstream/12343433; hsa-mir-10400/Downstream/6475080;

Nearest TSS

Nearest CpG islands

None/Target, chr8-CpG: 109/Upstream/136584, chr8-CpG: 22/Downstream/209588

Upstream sequence

TATAGACATTCTTCTAATATTCTGCCCTGTAACTGTTCTCATGTGAGGTGTTCCCATTCACTCCCATTTCTACAATAATTTGGAAAAATAACCAAGTTTA

Downstream sequence

TACATCTGGTCATGACCCTTCTTGGTATATTATAATCATCTCTTGACATCCCTTCTTCAATTATTCAACCCAAATTCCCATTCCATCCCGCAGCTTTCAA