VISDB - VIS Detail

Basic Information

VIS ID

TVIS44011850

Fusion event

HTLV-1-STRN 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

chr2

Cytoband

p22.2

Reference genome

GRCh37/hg19

Start

37081212/36854069 (Hg38)

End

37081212/36854069 (Hg38)

Orient

Location type

Intronic

Target gene

STRN

miRNAs that regulate target gene

hsa-mir-30a-5p ; hsa-mir-155-5p ; hsa-mir-484 ; hsa-mir-342-3p ; hsa-mir-197-3p ; hsa-mir-580-3p ; hsa-mir-6502-5p ; hsa-mir-1301-5p ; hsa-mir-539-5p ; hsa-mir-4539 ; hsa-mir-554 ; hsa-mir-4724-5p ; hsa-mir-3935 ; hsa-mir-3140-3p ; hsa-mir-4708-5p ; hsa-mir-4712-3p ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-583 ; hsa-mir-4458 ; hsa-mir-98-5p ; hsa-let-7i-5p ; hsa-let-7c-5p ; hsa-let-7d-5p ; hsa-mir-4500 ; hsa-let-7a-5p ; hsa-let-7e-5p ; hsa-let-7f-5p ; hsa-let-7b-5p ; hsa-let-7g-5p ; hsa-mir-1277-5p ; hsa-mir-6083 ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-584-5p ; hsa-mir-299-5p ; hsa-mir-758-5p ; hsa-mir-218-2-3p ; hsa-mir-656-3p ; hsa-mir-4637 ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-618 ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-6873-3p ; hsa-mir-7157-3p ; hsa-mir-6737-3p ; hsa-mir-5008-3p ; hsa-mir-6889-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-8064 ; hsa-mir-4642 ; hsa-mir-6868-3p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-4254 ; hsa-mir-3690 ; hsa-mir-141-5p ; hsa-mir-5197-5p ; hsa-mir-4313 ; hsa-mir-4762-5p ; hsa-mir-568 ; hsa-mir-621 ; hsa-mir-3146

Nearest miRNA

hsa-mir-1301/Upstream/1382583; hsa-mir-10b/Downstream/10523606;

Nearest TSS

ENST00000437798/Upstream/80257; ENST00000473067/Downstream/48859;

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/45294, chr2-CpG: 111/Downstream/111919

Upstream sequence

ATGTTTCCAGTGTCAAGTAAAAAGTCCTATTAATTTAGAGTCACATCTCTTGGGGGAAAATGTGGATTCACTCGCCTAGTTCTCTTTATCCATCTTATCT

Downstream sequence

ACCAGACTTGACATCTTATTAACCTGCAGTCATTAAAAAGCACTATTTCCACTCAGGATGTTCACAAATTGGCCATATAATCTCTGAAGGTAATTACAAA

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.