VISDB Viral Integration Site DataBase

VIS ID

TVIS44022605

Fusion event

HTLV-1-chr6 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

chr6

Cytoband

q12

Reference genome

Start

End

64105945/63396040 (Hg38)

Orient

-

Location type

Intronic

Target gene

LGSN ; LOC100133007

miRNAs that regulate target gene

hsa-mir-1273e ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-6807-5p ; hsa-mir-486-3p ; hsa-mir-2467-3p ; hsa-mir-6499-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6798-5p ; hsa-mir-4257 ; hsa-mir-6805-5p ; hsa-mir-7856-5p ; hsa-mir-4693-5p ; hsa-mir-1200 ; hsa-mir-1911-5p ; hsa-mir-544b ; hsa-mir-4324 ; hsa-mir-4793-5p ; hsa-mir-1278 ; hsa-mir-892a ; hsa-mir-4318 ; hsa-mir-2114-3p ; hsa-mir-6878-3p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-4312 ; hsa-mir-3922-3p ; hsa-mir-6778-3p ; hsa-mir-3176 ; hsa-mir-422a ; hsa-mir-378i ; hsa-mir-378h ; hsa-mir-378f ; hsa-mir-378e ; hsa-mir-378d ; hsa-mir-378c ; hsa-mir-378b ; hsa-mir-378a-3p ; hsa-mir-1976 ; hsa-mir-150-5p ; hsa-mir-371a-5p ; hsa-mir-212-5p ; hsa-mir-8073 ; hsa-mir-221-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-186-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-512-3p ; hsa-mir-888-5p ; 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-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-519e-5p ; hsa-mir-515-5p ; hsa-mir-5695 ; hsa-mir-519d-5p ; hsa-mir-1279 ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-6845-3p ; hsa-mir-136-5p

Nearest miRNA

hsa-mir-10398/Upstream/6005828; hsa-mir-10524/Downstream/7980920;

Nearest TSS

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/1109717, chr6-CpG: 163/Downstream/176206

Nearby gene

LGSN(-76063) ;

Upstream sequence

TCCCCTCCGCTACTTGGGTCTGCAGGAGCTGTTGAGGACTGAAATGGAGAGATGACTTCTTGGTTAGCCTCTAGGACAGCTAGGACTTGAGATTCCTTGA

Downstream sequence

GAAGCTTGTAGCATCCACAGATGAGGCATTTTGCAGAGACGGCAGGTCTGCAGGCAGGGACAGGGGCTGAAGCTCTGGCAGTTTCTCATTGTCTGGTTGC