VISDB Viral Integration Site DataBase

VIS ID

TVIS44020319

Fusion event

HTLV-1-LRRC20 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

chr10

Cytoband

q22.1

Reference genome

Start

End

72123638/70363882 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-26b-5p ; hsa-mir-484 ; hsa-mir-6760-5p ; 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-6858-5p ; hsa-mir-4689 ; hsa-mir-1224-5p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-6799-5p ; hsa-mir-3935 ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-5703 ; hsa-mir-4516 ; hsa-mir-4434 ; hsa-mir-4784 ; hsa-mir-3150b-3p ; hsa-mir-4751 ; hsa-mir-5004-5p ; hsa-mir-6770-5p ; hsa-mir-544b ; hsa-mir-140-3p ; hsa-mir-6831-5p ; hsa-mir-1245b-3p ; hsa-mir-3927-3p ; hsa-mir-5683 ; hsa-let-7b-5p ; hsa-mir-98-5p ; hsa-let-7a-5p ; hsa-mir-4458 ; hsa-mir-4500 ; hsa-let-7i-5p ; hsa-let-7e-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-let-7f-5p ; hsa-let-7g-5p ; hsa-mir-4522 ; hsa-mir-20a-3p ; hsa-mir-3180-5p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-210-5p ; hsa-mir-4749-3p ; hsa-mir-324-3p ; hsa-mir-1913 ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-22-3p ; hsa-mir-6768-3p

Nearest miRNA

hsa-mir-1265/Upstream/2960472; hsa-mir-107/Downstream/1426865;

Nearest TSS

Nearest CpG islands

None/Target, chr10-CpG: 68/Upstream/79752, chr10-CpG: 108/Downstream/17922

Upstream sequence

CCCAATCCAGACAGAGCAAGTCTAGAGGTGGCATGCTAGGCAGAAGGCTCCAAGTCAACCCCCAACACAGCACACCACAGAGGAGGCAGAGTTGGGAAAG

Downstream sequence

GTCTGTCTCCTTACAGAGGAGCTCAGTCCCCCTGGGAGAGCAGCACAGACCCTGCAGTGGGGACCTCCAGCCCCCTCTCCTCCCTGGTAAACTCCCACCT