VISDB - VIS Detail

Basic Information

VIS ID

TVIS44011179

Fusion event

HTLV-1-GTDC1 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

q22.3

Reference genome

GRCh37/hg19

Start

145000521/144242954 (Hg38)

End

145000521/144242954 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA2S ; FRA2K

Target gene

GTDC1

miRNAs that regulate target gene

hsa-mir-155-3p ; hsa-mir-8064 ; hsa-mir-483-3p ; hsa-mir-5580-3p ; hsa-mir-603 ; hsa-mir-8485 ; hsa-mir-335-3p ; hsa-mir-1305 ; hsa-mir-642a-5p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-4469 ; hsa-mir-6832-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-204-5p ; hsa-mir-211-5p ; hsa-mir-3691-3p ; hsa-mir-3163 ; hsa-mir-513c-3p ; hsa-mir-513a-3p ; hsa-mir-3606-3p ; hsa-mir-4282 ; hsa-mir-4778-5p ; hsa-mir-4279 ; hsa-mir-2355-5p ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-122-3p ; hsa-mir-6793-3p ; hsa-mir-7157-5p ; hsa-mir-4310 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-6747-3p ; hsa-mir-660-3p ; hsa-mir-939-3p ; hsa-mir-210-3p ; hsa-mir-1257 ; hsa-mir-6716-5p ; hsa-mir-15b-3p ; hsa-mir-2681-3p ; hsa-mir-7856-5p ; hsa-mir-3667-3p ; hsa-mir-6756-3p ; hsa-mir-3127-3p ; hsa-mir-6866-3p ; hsa-mir-188-5p ; hsa-mir-101-5p ; hsa-mir-125b-2-3p ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-6795-3p ; hsa-mir-6826-3p ; hsa-mir-6887-3p

Nearest miRNA

hsa-mir-128-1/Upstream/3656269; hsa-mir-10b/Downstream/5087324;

Nearest TSS

ENST00000437798/Upstream/5613; ENST00000634873/Downstream/51539;

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/305341, chr2-CpG: 127/Downstream/88932

Upstream sequence

gggaggctgagacatgagaatcacctgaacgcaggtggcagaggttgcagtgagccgaaattgcaccactgcactccagcctgggcgacagagcaagact

Downstream sequence

ctacttaaaaaaaaaaaaaaaaaaaaaaaaaGAGTATTCTGCCTATACTACCGTACTAGCATCATAATCATCACCTCACAAATGGAGTAACCCCAGTTAA

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.