VISDB - VIS Detail

Basic Information

VIS ID

TVIS44033547

Fusion event

HTLV-1-SAMD12 integration

Validated

Detection method

HTS

Data source

Curated

Sample type

Nontumor

Disease

Not given

Quality evaluation

Normal

Reported year

2019

PubMed ID

30307560

Virus Sequence

Virus name

HTLV-1

Subtype

HTLV-1c

Reference genome

KF242506

Host Sequence

Chromosome

chr8

Cytoband

q24.12

Reference genome

NCBI36/hg18

Start

119542143/118460723 (Hg38)

End

119542143/118460723 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA8C ; FRA8E

Target gene

SAMD12

miRNAs that regulate target gene

hsa-mir-340-5p ; hsa-mir-93-5p ; hsa-mir-526b-5p ; hsa-mir-570-3p ; hsa-mir-4635 ; hsa-mir-5584-3p ; hsa-mir-3976 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-4520-2-3p ; hsa-mir-7156-5p ; hsa-mir-4273 ; hsa-mir-4520-3p ; hsa-mir-3144-3p ; hsa-mir-2117 ; hsa-mir-4720-3p ; hsa-mir-4804-3p ; hsa-mir-4645-3p ; hsa-mir-571 ; hsa-mir-6782-3p ; hsa-mir-875-5p ; hsa-mir-4796-3p ; hsa-mir-3609 ; hsa-mir-548ah-5p ; hsa-mir-144-3p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-519d-3p ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-17-5p ; hsa-mir-526b-3p ; hsa-mir-20a-5p ; hsa-mir-20b-5p ; hsa-mir-302e ; hsa-mir-302a-3p ; hsa-mir-302b-3p ; hsa-mir-302c-3p ; hsa-mir-302d-3p ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520a-3p ; hsa-mir-520b ; hsa-mir-520e ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-520f-3p ; hsa-mir-7850-5p ; hsa-mir-4529-3p ; hsa-mir-4535 ; hsa-mir-4776-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-664b-3p ; hsa-mir-579-3p ; hsa-mir-659-5p ; hsa-mir-492 ; hsa-mir-6861-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-3667-3p ; hsa-mir-6832-3p ; hsa-mir-6756-3p ; hsa-mir-4693-3p ; hsa-mir-539-5p ; hsa-mir-548n ; hsa-mir-5586-3p

Nearest miRNA

hsa-mir-12123/Upstream/1585923; hsa-mir-10400/Downstream/864448;

Nearest TSS

ENST00000518652/Upstream/81118; ENST00000625758/Downstream/120159;

Nearest CpG islands

None/Target, chr8-CpG: 109/Upstream/348499, chr8-CpG: 34/Downstream/160964

Upstream sequence

AAACAAGAAATCACAAAATGGAGAGAGTTGGAAGATGGTGAGAGGGGAACATTACTGGAGGGAGAAGTGCAGAGGAGAAGGGCGGAAAAAGCTGGAGTAG

Downstream sequence

AGCAGAGATGATGAGACCATGAATAGTGAGACAGTTTGGCTCACATATAACAAGGCTGCCCACATGCACACACACAGGTGTTCTCTCAAACTGTGCTTGG

Reference

Turpin, J., et al. Impact of Hepatitis B Virus Coinfection on Human T-Lymphotropic Virus Type 1 Clonality in an Indigenous Population of Central Australia. J Infect Dis ,2019,219(4): 562-567.