VISDB Viral Integration Site DataBase

VIS ID

TVIS44019872

Fusion event

HTLV-1-RABGEF1 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

chr7

Cytoband

q11.21

Reference genome

Start

End

66167893/66702906 (Hg38)

Orient

+

Location type

Intronic

Fragile sites / regions

Target gene

miRNAs that regulate target gene

hsa-mir-122-5p ; hsa-mir-507 ; hsa-mir-557 ; hsa-mir-4282 ; hsa-mir-3646 ; hsa-mir-4731-3p ; hsa-mir-4801 ; hsa-mir-578 ; hsa-mir-1263 ; hsa-mir-526b-5p ; hsa-mir-4775 ; hsa-mir-4635 ; hsa-mir-6512-5p ; hsa-mir-590-3p ; hsa-mir-4436b-5p ; hsa-mir-6509-3p ; hsa-mir-1273g-3p ; hsa-mir-181a-2-3p ; hsa-mir-3154 ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-8064 ; hsa-mir-4524a-3p ; hsa-mir-4742-3p ; hsa-mir-1252-3p ; hsa-mir-5010-3p ; hsa-mir-2113 ; hsa-mir-6759-5p ; hsa-mir-6796-5p ; hsa-mir-4322 ; hsa-mir-4296 ; hsa-mir-4265 ; hsa-mir-4769-5p ; hsa-mir-4654 ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; hsa-mir-4648 ; hsa-mir-3140-3p ; hsa-mir-3613-3p ; hsa-mir-208b-5p ; hsa-mir-208a-5p ; hsa-mir-6739-3p ; hsa-mir-4677-5p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-6818-5p ; hsa-mir-3611 ; hsa-mir-573 ; hsa-mir-3616-5p ; hsa-mir-4777-5p ; hsa-mir-526a ; hsa-mir-523-5p ; hsa-mir-522-5p ; hsa-mir-520c-5p ; hsa-mir-519c-5p ; hsa-mir-519b-5p ; hsa-mir-519a-5p ; hsa-mir-518f-5p ; hsa-mir-518e-5p ; hsa-mir-518d-5p ; hsa-mir-5687 ; hsa-mir-4795-5p ; hsa-mir-8067 ; hsa-mir-6508-5p

Nearest miRNA

hsa-mir-1183/Upstream/2023730; hsa-mir-10399/Downstream/411416;

Nearest TSS

Nearest CpG islands

None/Target, chr7-CpG: 39/Upstream/19882, chr7-CpG: 134/Downstream/37352

Upstream sequence

atattttcattgggttgtttgtctttttgttgttcagttttgagagttttttatatattctggaaactagatccttattagcaatatgacttgcaaatat

Downstream sequence

tttctgtcattctgtagggtttattttcacttttttgatagtgtcttttaatgtatctaagtttttttgtttgtttgtttttgagaaggagtctcgctct