VISDB Viral Integration Site DataBase

VIS ID

TVIS44023062

Fusion event

HTLV-1-LDB1 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

q24.32

Reference genome

Start

End

103864654/102104897 (Hg38)

Orient

-

Location type

Intronic

Fragile sites / regions

FRA10D ; FRA10A ; FRA10B

Target gene

miRNAs that regulate target gene

hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-491-5p ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-6077 ; hsa-mir-3175 ; hsa-mir-4745-5p ; hsa-mir-4481 ; hsa-mir-1296-3p ; hsa-mir-9500 ; hsa-mir-6873-5p ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-6810-5p ; hsa-mir-198 ; hsa-mir-7107-3p ; hsa-mir-6753-3p ; hsa-mir-4652-5p ; hsa-mir-3191-3p ; hsa-mir-3144-5p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-215-3p ; hsa-mir-6773-3p ; hsa-mir-761 ; hsa-mir-3619-5p ; hsa-mir-214-3p ; hsa-mir-3919 ; hsa-mir-6510-5p ; hsa-mir-3123 ; hsa-mir-1972 ; hsa-mir-3616-3p ; hsa-mir-4266 ; hsa-mir-4436b-3p ; hsa-mir-4632-5p ; hsa-mir-4695-5p ; hsa-mir-4779 ; hsa-mir-6735-5p ; hsa-mir-6879-5p ; hsa-mir-7843-5p ; hsa-mir-101-3p ; hsa-mir-3910 ; hsa-mir-4259 ; hsa-mir-4425 ; hsa-mir-450b-3p ; hsa-mir-4668-5p ; hsa-mir-5089-5p ; hsa-mir-5187-5p ; hsa-mir-548an ; hsa-mir-582-5p ; hsa-mir-6504-3p ; hsa-mir-6513-5p ; hsa-mir-6728-5p ; hsa-mir-769-3p

Nearest miRNA

hsa-mir-107/Upstream/503400; hsa-mir-1307/Downstream/331615;

Nearest TSS

Nearest CpG islands

None/Target, chr10-CpG: 68/Upstream/38876, chr10-CpG: 40/Downstream/14979

Nearby gene

LDB1(-2671) ;

Upstream sequence

AGCCCCATAACTCAACACAGTCGCACTGCTAAGCCACACATTTAACAACACACCCTCATTTACGGATTTATAGCCTTCACTCACACTCAGCAGTCACAtc

Downstream sequence

ttctctgctttgttcaacatcatatccccagcacctagaatgggcctagtacctaaagagggctcaatgaataatatttgaatgaattaatTAACCAACA