VISDB - VIS Detail

Basic Information

VIS ID

TVIS44010910

Fusion event

HTLV-1-GNPTAB 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

chr12

Cytoband

q23.2

Reference genome

GRCh37/hg19

Start

102187587/101793809 (Hg38)

End

102187587/101793809 (Hg38)

Orient

Location type

Intronic

Target gene

GNPTAB

miRNAs that regulate target gene

hsa-mir-98-5p ; hsa-mir-615-3p ; hsa-mir-548aw ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-6739-5p ; hsa-mir-6733-5p ; hsa-mir-3153 ; hsa-mir-5093 ; hsa-mir-4668-5p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-548o-3p ; hsa-mir-1323 ; hsa-mir-454-3p ; hsa-mir-4295 ; hsa-mir-3666 ; hsa-mir-301b-3p ; hsa-mir-301a-3p ; hsa-mir-130b-3p ; hsa-mir-130a-3p ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-3646 ; hsa-mir-606 ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548t-5p ; hsa-mir-548az-5p ; hsa-mir-5582-3p ; hsa-mir-548c-3p ; hsa-mir-1247-3p ; hsa-mir-25-5p ; hsa-mir-3160-3p ; hsa-mir-377-5p ; hsa-mir-4459 ; hsa-mir-4487 ; hsa-mir-455-3p ; hsa-mir-5186 ; hsa-mir-558 ; hsa-mir-6086 ; hsa-mir-6087 ; hsa-mir-6499-3p ; hsa-mir-6516-5p ; hsa-mir-658 ; hsa-mir-3065-5p ; hsa-mir-3129-3p ; hsa-mir-3529-3p ; hsa-mir-3613-3p ; hsa-mir-371a-5p ; hsa-mir-371b-5p ; hsa-mir-372-5p ; hsa-mir-373-5p ; hsa-mir-4264 ; hsa-mir-4797-3p ; hsa-mir-548ae-3p ; hsa-mir-548ah-3p ; hsa-mir-548aj-3p ; hsa-mir-548am-3p ; hsa-mir-548aq-3p ; hsa-mir-548j-3p ; hsa-mir-548x-3p ; hsa-mir-5571-5p ; hsa-mir-5583-5p ; hsa-mir-616-5p

Nearest miRNA

hsa-let-7i/Upstream/1603860; hsa-mir-1178/Downstream/2136616;

Nearest TSS

ENST00000382841/Upstream/3755; ENST00000614926/Downstream/36854;

Nearest CpG islands

None/Target, chr12-CpG: 104/Upstream/54172, chr12-CpG: 49/Downstream/36712

Upstream sequence

AACTTTCATTTTAATCACTGTTTAGTTTAAGTGAATATTAAAGCCACTTAACAGTCCCTTGGTTCTACATTCTATAAAGTAGGTGAGAAAACAGAGAACT

Downstream sequence

TAAATAGTATTTTGTCttacttatttatttatttatttatttacttatttagagatagagtcttgctctgtcgcccaggctggagtgcagtggtgccatc

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.