VISDB - VIS Detail

Basic Information

VIS ID

TVIS44012069

Fusion event

HTLV-1-RBFOX1 integration

Validated

No

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

chr16

Cytoband

p13.3

Reference genome

GRCh37/hg19

Start

6792500/6742499 (Hg38)

End

6792500/6742499 (Hg38)

Orient

+

Location type

Intronic

Target gene

RBFOX1

miRNAs that regulate target gene

hsa-mir-30a-5p ; hsa-let-7b-5p ; hsa-mir-3157-5p ; hsa-mir-153-5p ; hsa-mir-935 ; hsa-mir-4691-3p ; hsa-mir-1305 ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-498 ; hsa-mir-4753-3p ; hsa-mir-627-3p ; hsa-mir-6832-3p ; hsa-mir-562

Nearest miRNA

hsa-mir-1225/Upstream/1109933; hsa-mir-11401/Downstream/4563941;

Nearest TSS

ENST00000527434/Upstream/258706; ENST00000569889/Downstream/31310;

Nearest CpG islands

None/Target, chr16-CpG: 29/Upstream/258517, chr16-CpG: 23/Downstream/561833

Upstream sequence

aactcttctggcaaattgtttgtagtttcttaaaataaatagacatttaccaatgagtcaacaatcacatttctggacatttattccacagaaatgaaag

Downstream sequence

ttaatgtccacgaaaaaccccagaaagctatacacaattattgtcagcagttttatttctgagtcaaaaactggaaacaaccaaaatatctacagtaggt

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.