VISDB Viral Integration Site DataBase

VIS ID

TVIS44017582

Fusion event

HTLV-1-HMGB1 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

chr13

Cytoband

q12.3

Reference genome

Start

End

31131962/30557825 (Hg38)

Orient

+

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-22-3p ; hsa-mir-193b-3p ; hsa-mir-877-3p ; hsa-mir-652-3p ; hsa-mir-18a-3p ; hsa-mir-181d-5p ; hsa-mir-148b-3p ; hsa-mir-328-3p ; hsa-let-7g-5p ; hsa-mir-148a-3p ; hsa-mir-100-5p ; hsa-mir-92a-3p ; hsa-mir-26b-5p ; hsa-let-7e-5p ; hsa-let-7b-5p ; hsa-mir-218-5p ; hsa-mir-153-3p ; hsa-mir-3177-5p ; hsa-mir-571 ; hsa-mir-302d-5p ; hsa-mir-302b-5p ; hsa-mir-6798-5p ; hsa-mir-3174 ; hsa-mir-4433b-3p ; hsa-mir-219a-1-3p ; hsa-mir-5089-5p ; hsa-mir-6807-5p ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-6506-5p ; hsa-mir-4252 ; hsa-mir-619-5p ; hsa-mir-186-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-512-3p ; hsa-mir-595 ; 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-6778-3p ; hsa-mir-150-5p ; hsa-mir-4699-3p ; hsa-mir-1179 ; hsa-mir-374c-3p ; hsa-mir-8084 ; hsa-mir-4798-5p ; hsa-mir-3152-3p ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-4509 ; hsa-mir-4744 ; hsa-mir-648 ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-142-3p ; hsa-mir-4460 ; hsa-mir-4727-3p ; hsa-mir-6809-5p ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-4742-5p ; hsa-mir-3677-5p ; hsa-mir-1183 ; hsa-mir-6753-5p ; hsa-mir-1911-3p ; hsa-mir-6868-3p ; hsa-mir-6881-3p ; hsa-mir-1236-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-452-3p ; hsa-mir-4778-3p ; hsa-mir-6870-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-141-5p ; hsa-mir-6515-3p ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-891b ; hsa-mir-4772-3p ; hsa-mir-129-5p ; hsa-mir-1200 ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-4682 ; hsa-mir-4424 ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-544b ; hsa-mir-4324 ; hsa-mir-106a-3p ; hsa-mir-4275 ; hsa-mir-4284 ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-6741-3p ; hsa-mir-1304-3p ; hsa-mir-1281 ; hsa-mir-4485-5p ; hsa-mir-4532 ; hsa-mir-1247-3p ; hsa-mir-6890-3p ; hsa-mir-122-3p ; hsa-mir-6878-3p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-4707-3p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-324-3p ; hsa-mir-1913 ; hsa-mir-212-5p ; hsa-mir-205-5p ; hsa-mir-21-5p ; hsa-mir-181b-5p ; hsa-mir-193a-3p ; hsa-mir-320a ; hsa-mir-200a-3p ; hsa-mir-34a-5p ; hsa-let-7a-2-3p ; hsa-let-7g-3p ; hsa-mir-191-3p ; hsa-mir-4436a ; hsa-mir-4668-5p ; hsa-mir-4733-3p ; hsa-mir-5000-3p ; hsa-mir-548a-3p ; hsa-mir-548ae-3p ; hsa-mir-548ah-3p ; hsa-mir-548aj-3p ; hsa-mir-548am-3p ; hsa-mir-548aq-3p ; hsa-mir-548ar-3p ; hsa-mir-548av-3p ; hsa-mir-548az-3p ; hsa-mir-548e-3p ; hsa-mir-548f-3p ; hsa-mir-548j-3p ; hsa-mir-548x-3p

Nearest miRNA

hsa-mir-2276/Upstream/6395321; hsa-mir-1267/Downstream/9106209;

Nearest TSS

Nearest CpG islands

None/Target, chr13-CpG: 551/Upstream/91746, chr13-CpG: 71/Downstream/59549

Upstream sequence

acctgattcttaaacttggtccaaccttgcctctttttagtctttgactgaatagctctagttctcacctaaagagttatatgaaataCAGTTCCAGAAA

Downstream sequence

GAGAAGCGGATGTTAAGAAGAGAGCGAGACAGGGCACAGAATAGACTTGAACCTCATGTCTATCAATTCGGTATGTGTTCATGTGGTTTCTGACTCTAGA