VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10003804

Fusion event

HBV-MYOCD integration

Validated

No

Detection method

HIVID

Data source

Curated

Sample type

Tumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2016

PubMed ID

27703150

Virus Sequence

Virus name

HBV

Reference genome

AF090842.1;AB033554.1;AB014381.1;M32138.1;AB032431.1;AB036910.1;AB064310;AY090454.1

Host Sequence

Chromosome

chr17

Cytoband

p12

Reference genome

GRCh37/hg19

Start

12628997/12725680 (Hg38)

End

12628997/12725680 (Hg38)

Location type

Intronic

Fragile sites / regions

FRA17A

Target gene

MYOCD

miRNAs that regulate target gene

hsa-mir-1-3p ; hsa-mir-6875-3p ; hsa-mir-629-3p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-642a-5p ; hsa-mir-7106-3p ; hsa-mir-4778-3p ; hsa-mir-130b-5p ; hsa-mir-1236-3p ; hsa-mir-6515-3p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-7113-3p ; hsa-mir-4469 ; hsa-mir-877-3p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-335-3p ; hsa-mir-6846-3p ; hsa-mir-6832-3p ; hsa-mir-1238-3p ; hsa-mir-3148 ; hsa-mir-3667-5p ; hsa-mir-3646 ; hsa-mir-3662 ; hsa-mir-3978 ; hsa-mir-6124 ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-4652-3p ; hsa-mir-6809-3p ; hsa-mir-4753-3p ; hsa-mir-3182 ; hsa-mir-5571-5p ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-3124-3p ; hsa-mir-2115-5p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-6798-3p ; hsa-mir-627-3p ; hsa-mir-5088-3p ; hsa-mir-7850-5p ; hsa-mir-4529-3p ; hsa-mir-4520-2-3p ; hsa-mir-4520-3p ; hsa-mir-5591-3p ; hsa-mir-3927-5p ; hsa-mir-141-5p ; hsa-mir-660-5p ; hsa-mir-6780a-3p ; hsa-mir-607 ; hsa-let-7i-3p ; hsa-mir-3613-3p ; hsa-mir-4778-5p ; hsa-mir-548as-3p ; hsa-mir-548z ; hsa-mir-548h-3p ; hsa-mir-548d-3p ; hsa-mir-548bb-3p ; hsa-mir-548ac ; hsa-mir-145-5p ; hsa-mir-9-5p

Nearest miRNA

hsa-mir-1253/Upstream/643684; hsa-mir-10226/Downstream/191588;

Nearest TSS

ENST00000595228/Upstream/5391; ENST00000443061/Downstream/18671;

Nearest CpG islands

None/Target, chr17-CpG: 26/Upstream/59662, chr17-CpG: 90/Downstream/63740

Upstream sequence

aatttaataATTATTGATATATTACATAGTGGAATACTATTGTTATTGATACCTTGCCAGTGCCTCAAAAGTAatattatattatatgtattatattata

Downstream sequence

ttaGTGTTGCTGTATGTTTTATATTATGTTATAATGTCTTATATtgatgattacatacatttttgttttgtttctctcttaaatcggatttttctagtca

Reference

Zhao, L. H., et al.Genomic and oncogenic preference of HBV integration in hepatocellular carcinoma. Nat Commun ,2016,7: 12992.