VISDB - VIS Detail

Basic Information

VIS ID

TVIS44006629

Fusion event

HTLV-1-SHISA6 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

p12

Reference genome

GRCh37/hg19

Start

11242018/11338701 (Hg38)

End

11242018/11338701 (Hg38)

Orient

Location type

Intronic

Fragile sites / regions

FRA17A

Target gene

SHISA6

miRNAs that regulate target gene

hsa-mir-620 ; hsa-mir-1270 ; hsa-mir-5196-5p ; hsa-mir-6797-5p ; hsa-mir-4747-5p ; hsa-mir-1249-5p ; hsa-mir-4683 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-4708-5p ; hsa-mir-9500 ; hsa-mir-4459 ; hsa-mir-4779 ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-491-5p ; hsa-mir-7847-3p ; hsa-mir-92a-2-5p ; hsa-mir-6825-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-7106-5p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-6851-5p ; hsa-mir-3689d ; hsa-mir-766-5p ; hsa-mir-3665 ; hsa-mir-6134 ; hsa-mir-3928-3p ; hsa-mir-6777-5p ; hsa-mir-6889-5p ; hsa-mir-194-3p ; hsa-mir-5693 ; hsa-mir-2278 ; hsa-mir-6875-3p ; hsa-mir-6502-5p ; hsa-mir-1301-5p ; hsa-mir-4778-3p ; hsa-mir-26a-2-3p ; hsa-mir-26a-1-3p ; hsa-mir-6731-3p ; hsa-mir-499b-5p ; hsa-mir-4494 ; hsa-mir-506-5p ; hsa-mir-892c-5p ; hsa-mir-3680-5p ; hsa-mir-6741-3p ; hsa-mir-6867-3p ; hsa-mir-6749-3p ; hsa-mir-6826-3p ; hsa-mir-1298-5p ; hsa-mir-7110-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-205-5p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-5193 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-6795-3p ; hsa-mir-6887-3p ; hsa-mir-502-5p ; hsa-mir-1915-5p ; hsa-mir-6841-3p

Nearest miRNA

hsa-mir-1253/Upstream/3151697; hsa-mir-10226/Downstream/743198;

Nearest TSS

ENST00000595228/Upstream/50496; ENST00000579828/Downstream/259730;

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/96602, chr17-CpG: 32/Downstream/219053

Upstream sequence

ggtttcaccgtgttggccaggatggtctcaatctcttgacctcatgatctgcccgccttggtcctcagcctcccaaagtgctggcattacaggcgtgagc

Downstream sequence

cactacacccggccACCAGAAGACTTTTAACAAAAGATTTATCTGTCTTTTCATTGGCCATCCTGTGATTCACAGCTCAAGGTGACTTTGAATTTTGCTG

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.