VISDB Viral Integration Site DataBase

VIS ID

TVIS44019551

Fusion event

HTLV-1-GDNF 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

chr5

Cytoband

p13.2

Reference genome

Start

End

37834985/37834883 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-148b-3p ; hsa-mir-128-3p ; hsa-mir-7-5p ; hsa-mir-129-5p ; hsa-mir-140-3p ; hsa-mir-4282 ; hsa-mir-3680-3p ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-450b-5p ; hsa-mir-448 ; hsa-mir-153-3p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-8066 ; hsa-mir-548an ; hsa-mir-548e-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-22-5p ; hsa-mir-2116-5p ; hsa-mir-302d-5p ; hsa-mir-302b-5p ; hsa-mir-4307 ; hsa-mir-4255 ; hsa-mir-33a-3p ; hsa-mir-409-3p ; hsa-mir-548aw ; hsa-mir-3124-3p ; hsa-mir-499b-5p ; hsa-mir-4304 ; hsa-mir-4499 ; hsa-mir-4724-5p ; hsa-mir-1912 ; hsa-mir-1295b-5p ; hsa-mir-190a-3p ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-4789-3p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-5583-5p ; hsa-mir-3129-3p ; hsa-mir-9-5p ; hsa-mir-96-5p ; hsa-mir-133a-5p

Nearest miRNA

hsa-mir-10397/Upstream/1686895; hsa-mir-103a-1/Downstream/722619;

Nearest TSS

Nearest CpG islands

chr5-CpG: 51/Target, None/Upstream, None/Downstream

Upstream sequence

CCCATAACTTCATCTTAAAGTCCCGTCCGGCGGCGGCACCTGCGCGGGCAGGCGGGAGGTGGGGGAGAGAACCGCAGAATGCACGTTAAGCCTGGGCTCC

Downstream sequence

CTGCGGGTCCCTGCGCCCCTCTCCAACCTCGTCACCGCCCTCCTCCGGCACCGCTGCAGGCCAGCGGCTCCTCGGGCACTCCTGCCCTCCTTGCAAGTCC