VISDB Viral Integration Site DataBase

VIS ID

TVIS44015563

Fusion event

HTLV-1-RABGAP1L 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

chr1

Cytoband

q25.1

Reference genome

Start

End

174508950/174539812 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-4504 ; hsa-mir-4778-3p ; hsa-mir-676-5p ; hsa-mir-4714-3p ; hsa-mir-34c-3p ; hsa-mir-7161-3p ; hsa-mir-3156-5p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-3187-3p ; hsa-mir-4435 ; hsa-mir-588 ; hsa-mir-4701-5p ; hsa-mir-548s ; hsa-mir-378a-5p ; hsa-mir-6802-5p ; hsa-mir-6800-5p ; hsa-mir-6131 ; hsa-mir-4755-3p ; hsa-mir-6759-3p ; hsa-mir-3663-5p ; hsa-mir-3653-5p ; hsa-mir-372-5p ; hsa-mir-371a-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-4781-3p ; hsa-mir-5089-5p ; hsa-mir-6807-5p ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-6778-3p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-150-5p ; hsa-mir-1224-3p ; hsa-mir-186-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-6504-3p ; hsa-mir-512-3p ; hsa-mir-576-3p ; 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-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-1297 ; hsa-mir-1343-3p ; hsa-mir-1976 ; hsa-mir-23a-5p ; hsa-mir-23b-5p ; hsa-mir-26a-5p ; hsa-mir-26b-5p ; hsa-mir-4279 ; hsa-mir-4465 ; hsa-mir-4722-3p ; hsa-mir-4740-3p ; hsa-mir-6513-3p ; hsa-mir-660-3p ; hsa-mir-6727-3p ; hsa-mir-6742-3p ; hsa-mir-6747-3p ; hsa-mir-6783-3p ; hsa-mir-6791-3p ; hsa-mir-6829-3p ; hsa-mir-6836-3p ; hsa-mir-6852-5p ; hsa-mir-8062 ; hsa-mir-939-3p

Nearest miRNA

hsa-mir-101-1/Upstream/2395168; hsa-mir-1182/Downstream/1428558;

Nearest TSS

Nearest CpG islands

None/Target, chr1-CpG: 111/Upstream/379903, chr1-CpG: 121/Downstream/459541

Upstream sequence

tccaagtctgtgctattgtgaatagtgccacaataaacatacgtatgcatgtgtctttataacagcatgatttataatccttcgggtttatacccagtaa

Downstream sequence

tgggatgtctgggtcaaatggtatttctagttctagatcattgaggaatcgccacactgtcttccacaagggttgaactagtttatagtcccaccaacag