VISDB - VIS Detail

Basic Information

VIS ID

TVIS44004622

Fusion event

HTLV-1-CALCOCO2 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

chr17

Cytoband

q21.32

Reference genome

GRCh37/hg19

Start

46918642/48841280 (Hg38)

End

46918642/48841280 (Hg38)

Orient

Location type

Intronic

Target gene

CALCOCO2

miRNAs that regulate target gene

hsa-let-7b-5p ; hsa-mir-142-3p ; hsa-mir-93-5p ; hsa-let-7d-5p ; hsa-mir-361-5p ; hsa-mir-6807-5p ; hsa-mir-3115 ; hsa-mir-4253 ; hsa-mir-6862-5p ; hsa-mir-3945 ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-4252 ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-1273g-3p ; hsa-mir-512-3p ; hsa-mir-3152-5p ; hsa-mir-6836-3p ; hsa-mir-6778-3p ; hsa-mir-3137 ; hsa-mir-331-3p ; hsa-mir-6810-3p ; hsa-mir-6801-3p ; hsa-mir-192-3p ; hsa-mir-4753-3p ; hsa-mir-6873-3p ; hsa-mir-5189-3p ; hsa-mir-130b-5p ; hsa-mir-7110-3p ; hsa-mir-6817-3p ; hsa-mir-6818-3p ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-4713-5p ; hsa-mir-1229-3p ; hsa-mir-2116-3p ; hsa-mir-4524a-3p ; hsa-mir-532-3p ; hsa-mir-150-5p ; hsa-mir-6862-3p ; hsa-mir-6784-3p ; hsa-mir-6511b-3p ; hsa-mir-6511a-3p ; hsa-mir-5007-5p ; hsa-mir-4797-5p ; hsa-mir-129-5p ; hsa-mir-8055 ; hsa-mir-122-5p ; hsa-mir-1289 ; hsa-mir-3135b ; hsa-mir-3198 ; hsa-mir-3652 ; hsa-mir-4294 ; hsa-mir-4309 ; hsa-mir-431-5p ; hsa-mir-4430 ; hsa-mir-4534 ; hsa-mir-500b-3p ; hsa-mir-504-3p ; hsa-mir-5096 ; hsa-mir-5691 ; hsa-mir-5698 ; hsa-mir-6514-5p ; hsa-mir-6802-3p ; hsa-mir-6805-3p ; hsa-mir-8082 ; hsa-mir-924

Nearest miRNA

hsa-mir-10226/Upstream/116805; hsa-mir-1250/Downstream/447066;

Nearest TSS

ENST00000595228/Upstream/10052; ENST00000509014/Downstream/283;

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/9798, chr17-CpG: 35/Downstream/51053

Upstream sequence

tactGCATGTCAAATAATTTTCTCTCATTCCCATCCCCAGGTCCTAGCAGAGTATCTTATGTATGGAAGGTCCTGATAATTATAGGATAAATGGGATTGA

Downstream sequence

ATATAgaagatgaaatccagagagatggactttcctaaagtcatagggcttgttgggatgaaaaatctagaattTAACAGTTCCCAGCTCAGGCTATTTT

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.