VISDB - VIS Detail

Basic Information

VIS ID

TVIS44004237

Fusion event

HTLV-1-RNF216 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

chr7

Cytoband

p22.1

Reference genome

GRCh37/hg19

Start

5738283/5698652 (Hg38)

End

5738283/5698652 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA7B

Target gene

RNF216

miRNAs that regulate target gene

hsa-mir-455-3p ; hsa-mir-320a ; hsa-mir-376a-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-5089-5p ; hsa-mir-4279 ; hsa-mir-1200 ; hsa-mir-4465 ; hsa-mir-26b-5p ; hsa-mir-26a-5p ; hsa-mir-1297 ; hsa-mir-1911-5p ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-544b ; hsa-mir-4324 ; hsa-mir-660-3p ; hsa-mir-6513-3p ; hsa-mir-8062 ; hsa-mir-7851-3p ; hsa-mir-619-3p ; hsa-mir-5698 ; hsa-mir-744-3p ; hsa-mir-1178-3p ; hsa-mir-891a-3p ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3140-3p ; hsa-mir-3135b ; hsa-mir-3934-3p ; hsa-mir-6499-3p ; hsa-mir-5693 ; hsa-mir-484 ; hsa-mir-3155b ; hsa-mir-3155a ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-93-5p ; hsa-mir-17-5p ; hsa-mir-4662a-3p

Nearest miRNA

hsa-mir-339/Upstream/202735; hsa-mir-10399/Downstream/13188;

Nearest TSS

ENST00000635602/Upstream/48637; ENST00000416608/Downstream/14789;

Nearest CpG islands

None/Target, chr7-CpG: 39/Upstream/90299, chr7-CpG: 91/Downstream/82361

Upstream sequence

attaaatttttttctattttgtgtagagacgaggttgtgctttgttgcccaggctggtcttgaactcataacctcaagcaatcctcctgcctcattctcc

Downstream sequence

caaagtgctggaattataggcatgagccaccgctccggccTCTTGGATTCTTCATAGGTAGTTTAAGTCTGTTTTCCCAGAGAAGCTGGAAAACACCAGG

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.