VISDB - VIS Detail

Basic Information

VIS ID

TVIS44004440

Fusion event

HTLV-1-TM9SF4 integration

Validated

Detection method

HTS

Data source

download(RID)

Sample type

Nontumor

Disease

Adult T-cell leukemia (ATL)

Quality evaluation

Normal

Reported year

2014

PubMed ID

24735963

Virus Sequence

Virus name

HTLV-1

Reference genome

Not given

Host Sequence

Chromosome

chr20

Cytoband

q11.21

Reference genome

GRCh37/hg19

Start

30703161/32115358 (Hg38)

End

30703161/32115358 (Hg38)

Orient

Location type

Intronic

Target gene

TM9SF4

miRNAs that regulate target gene

hsa-mir-1226-3p ; hsa-mir-1229-3p ; hsa-mir-6868-3p ; hsa-mir-513b-5p ; hsa-mir-4724-3p ; hsa-mir-342-3p ; hsa-mir-1248 ; hsa-mir-1237-3p ; hsa-mir-125b-2-3p ; hsa-mir-4457 ; hsa-mir-141-5p ; hsa-mir-3162-5p ; hsa-mir-9500 ; hsa-mir-6822-5p ; hsa-mir-6750-5p ; hsa-mir-5584-5p ; hsa-mir-3123 ; hsa-mir-216b-5p ; hsa-mir-4311 ; hsa-mir-1207-5p ; hsa-mir-184 ; hsa-mir-185-5p ; hsa-mir-3131 ; hsa-mir-3616-3p ; hsa-mir-4270 ; hsa-mir-4306 ; hsa-mir-4421 ; hsa-mir-4436b-3p ; hsa-mir-4441 ; hsa-mir-4456 ; hsa-mir-4632-5p ; hsa-mir-4644 ; hsa-mir-4763-3p ; hsa-mir-516a-3p ; hsa-mir-516b-3p ; hsa-mir-5699-3p ; hsa-mir-611 ; hsa-mir-6721-5p ; hsa-mir-6731-5p ; hsa-mir-6735-5p ; hsa-mir-6748-3p ; hsa-mir-6754-5p ; hsa-mir-6758-5p ; hsa-mir-6760-5p ; hsa-mir-6815-3p ; hsa-mir-6856-5p ; hsa-mir-6879-5p ; hsa-mir-7152-5p ; hsa-mir-7162-5p ; hsa-mir-7843-5p ; hsa-mir-8085

Nearest miRNA

hsa-mir-103a-2/Upstream/508118; hsa-mir-1-1/Downstream/122437;

Nearest TSS

ENST00000382410/Upstream/5591; ENST00000479591/Downstream/43785;

Nearest CpG islands

None/Target, chr20-CpG: 39/Upstream/62375, chr20-CpG: 71/Downstream/74595

Upstream sequence

CCTCTTAGTTTCTGTTTTACAACTTGGACAAACGTCTCCCTTTGATCTTGGCATTAAAGAAGCACGTCAGAGAATGTTGGAGAAGGCTGAGTTTTGATCT

Downstream sequence

CTGGGCACTGGCAAAAAGGTGGGAAGGACCCAGGATGAGAAGAGCCATCTGGCCACGGATGAATAATAGGAGCCACTACCACCTTCAAGCCTGCTTTGAT

Reference

Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.