VISDB - VIS Detail

Basic Information

VIS ID

TVIS44008827

Fusion event

HTLV-1-SAMD4B 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

chr19

Cytoband

q13.2

Reference genome

GRCh37/hg19

Start

39843163/39352523 (Hg38)

End

39843163/39352523 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA19A

Target gene

SAMD4B

miRNAs that regulate target gene

hsa-mir-744-5p ; hsa-mir-92b-5p ; hsa-mir-93-3p ; hsa-mir-320a ; hsa-mir-30d-5p ; hsa-mir-93-5p ; hsa-let-7a-5p ; hsa-mir-6758-5p ; hsa-mir-6856-5p ; hsa-mir-4726-5p ; hsa-mir-4640-5p ; hsa-mir-6799-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-7854-3p ; hsa-mir-3918 ; hsa-mir-6865-5p ; hsa-mir-6815-5p ; hsa-mir-6895-5p ; hsa-mir-6859-5p ; hsa-mir-3916 ; hsa-mir-3125 ; hsa-mir-4700-5p ; hsa-mir-6857-5p ; hsa-mir-3915 ; hsa-mir-92a-2-5p ; hsa-mir-4450 ; hsa-mir-3649 ; hsa-mir-5187-5p ; hsa-mir-1255b-5p ; hsa-mir-1255a ; hsa-mir-4644 ; hsa-mir-4306 ; hsa-mir-185-5p ; hsa-mir-4533 ; hsa-mir-1827 ; hsa-mir-3928-3p ; hsa-mir-1252-5p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6876-5p ; hsa-mir-6808-5p ; hsa-mir-4476 ; hsa-mir-4428 ; hsa-mir-651-3p ; hsa-mir-762 ; hsa-mir-5001-5p ; hsa-mir-4498 ; hsa-mir-4430 ; hsa-mir-4492 ; hsa-mir-3652 ; hsa-mir-765 ; hsa-mir-6894-5p ; hsa-mir-7154-3p ; hsa-mir-766-5p ; hsa-mir-6837-5p ; hsa-mir-3135b ; hsa-mir-4685-5p ; hsa-mir-4446-3p ; hsa-mir-4506 ; hsa-mir-2682-5p ; hsa-mir-34b-5p ; hsa-mir-449c-5p ; hsa-mir-4514 ; hsa-mir-4692 ; hsa-mir-491-5p ; hsa-mir-622

Nearest miRNA

hsa-mir-10395/Upstream/4006896; hsa-let-7e/Downstream/57100;

Nearest TSS

ENST00000633603/Upstream/2723; ENST00000594204/Downstream/1481;

Nearest CpG islands

None/Target, chr19-CpG: 112/Upstream/9490, chr19-CpG: 72/Downstream/38169

Upstream sequence

ttcccacatttgaaaatagggggggattttactttaaaattcagatatctggctcctctttaggggaaaaaaaaaaaaaaaaaaacctaagacgtaacaa

Downstream sequence

tactggacccacattccttcatggtagcagttgataagaggtggatagtgacttctcccttttgaccgggtgtggactttccaactcaccatagtcccag

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.