VISDB - VIS Detail

Basic Information

VIS ID

TVIS44008518

Fusion event

HTLV-1-AGAP1 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

q37.2

Reference genome

GRCh37/hg19

Start

236879411/235970767 (Hg38)

End

236879411/235970767 (Hg38)

Orient

Location type

Intronic

Target gene

AGAP1

miRNAs that regulate target gene

hsa-mir-221-3p ; hsa-mir-1225-3p ; hsa-mir-324-5p ; hsa-mir-6080 ; hsa-mir-6849-5p ; hsa-mir-3681-5p ; hsa-mir-3591-3p ; hsa-mir-21-3p ; hsa-mir-8078 ; hsa-mir-6077 ; hsa-mir-6873-5p ; hsa-mir-4733-3p ; hsa-mir-4798-3p ; hsa-mir-498 ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-466 ; hsa-mir-4672 ; hsa-mir-3941 ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-3648 ; hsa-mir-6869-3p ; hsa-mir-4638-5p ; hsa-mir-5193 ; hsa-mir-181d-3p ; hsa-mir-1233-5p ; hsa-mir-1273h-5p ; hsa-mir-1290 ; hsa-mir-143-3p ; hsa-mir-2909 ; hsa-mir-29a-3p ; hsa-mir-29b-3p ; hsa-mir-29c-3p ; hsa-mir-3065-3p ; hsa-mir-30b-3p ; hsa-mir-3167 ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-4270 ; hsa-mir-4278 ; hsa-mir-4441 ; hsa-mir-4688 ; hsa-mir-4738-3p ; hsa-mir-4770 ; hsa-mir-486-3p ; hsa-mir-5004-3p ; hsa-mir-548ac ; hsa-mir-548as-3p ; hsa-mir-548bb-3p ; hsa-mir-548d-3p ; hsa-mir-548h-3p ; hsa-mir-548z ; hsa-mir-5584-5p ; hsa-mir-6085 ; hsa-mir-6088 ; hsa-mir-629-5p ; hsa-mir-642b-5p ; hsa-mir-6743-5p ; hsa-mir-6753-5p ; hsa-mir-6754-5p ; hsa-mir-6760-5p ; hsa-mir-6778-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6789-5p ; hsa-mir-6799-5p ; hsa-mir-6804-5p ; hsa-mir-6813-5p ; hsa-mir-6824-5p ; hsa-mir-7106-5p ; hsa-mir-7113-5p ; hsa-mir-876-5p

Nearest miRNA

hsa-mir-10b/Upstream/3420194; hsa-mir-149/Downstream/1540164;

Nearest TSS

ENST00000437798/Upstream/61925; ENST00000482882/Downstream/69845;

Nearest CpG islands

None/Target, chr2-CpG: 135/Upstream/11505, chr2-CpG: 20/Downstream/130807

Upstream sequence

TATCCCACCCACGTGTTGACCGCTGTGTAAATGAGTGAATAAATCAGTAGCGTTTCTGCACATTTGATGGAGCAGCTGGCACCACCCAGTGTTCCATTCA

Downstream sequence

GCACCGGTGAGTTTGAAGGAAGTTTGACAAGTGACCGTGACCACGTTGGACGCCTGATGTTTCAGGTCCACTTGCTGAGTGAGTGGGATGGTATGTGTGT

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.