VISDB Viral Integration Site DataBase

VIS ID

TVIS44022168

Fusion event

HTLV-1-RFT1 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

chr3

Cytoband

p21.1

Reference genome

Start

End

53107252/53073236 (Hg38)

Orient

-

Location type

Intronic

Target gene

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-16-5p ; hsa-mir-133a-3p ; hsa-mir-124-3p ; hsa-mir-30a-5p ; hsa-mir-330-5p ; hsa-mir-218-5p ; hsa-mir-1304-5p ; 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-1273e ; hsa-mir-6765-5p ; hsa-mir-6807-5p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; 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-6894-5p ; hsa-mir-7160-5p ; hsa-mir-6134 ; hsa-mir-7854-3p ; hsa-mir-3188 ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-3975 ; hsa-mir-2467-5p ; hsa-mir-7162-3p ; hsa-mir-1233-3p ; hsa-mir-665 ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-4695-5p ; hsa-mir-6879-3p ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-1825 ; hsa-mir-3607-5p ; hsa-mir-152-3p ; hsa-mir-148b-3p ; hsa-mir-148a-3p ; hsa-mir-4733-3p ; hsa-mir-1226-3p ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-6797-3p ; hsa-mir-6076 ; hsa-mir-130b-5p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-4712-3p ; hsa-mir-6856-5p ; hsa-mir-6758-5p

Nearest miRNA

hsa-let-7g/Upstream/226684; hsa-mir-12124/Downstream/2779256;

Nearest TSS

Nearest CpG islands

None/Target, chr3-CpG: 148/Upstream/26151, chr3-CpG: 38/Downstream/56954

Nearby gene

RFT1(-15249) ;

Upstream sequence

GGTCGAGGGCACCTGTGGGCAATGATTGACATAACACTGCAGAGAGAGAGCCTGGTGGGGCACCGGCCTCTGCCCAGGCTGGGTTCCGGGGCCTTCCCCC

Downstream sequence

ATGTGCCCACATCCCATGCTTCCCCCGTTACAGCCTCTGCCGTCAGACTGCGCACCAGCATCTGTGGGTGAGGAGAGAACCTGGGCTGGGGCTTGACACA