VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10015730

Fusion event

HBV-LIN28B integration

Validated

No

Detection method

MAPS

Data source

Curated

Sample type

Adjacent tissue

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Perfect

Reported year

2012

PubMed ID

23236287

Virus Sequence

Virus name

HBV

Reference genome

AY800389.1;AY800390.1;AY800391.1;AY800392.1

Orient

-

Host Sequence

Chromosome

chr6

Cytoband

q21

Reference genome

GRCh37/hg19

Start

105479066/105031191 (Hg38)

End

105479066/105031191 (Hg38)

Orient

-

Location type

Intronic

Target gene

LIN28B

miRNAs that regulate target gene

hsa-let-7b-5p ; hsa-mir-125b-5p ; hsa-mir-151a-3p ; hsa-mir-196a-5p ; hsa-let-7d-5p ; hsa-mir-484 ; hsa-mir-125a-5p ; hsa-mir-15b-5p ; hsa-mir-100-5p ; hsa-mir-26a-5p ; hsa-mir-1277-5p ; hsa-mir-8070 ; hsa-mir-1273g-5p ; hsa-mir-563 ; hsa-mir-380-5p ; hsa-mir-335-5p ; hsa-mir-140-5p ; hsa-mir-576-3p ; hsa-mir-2681-5p ; hsa-mir-6885-3p ; hsa-mir-4718 ; hsa-mir-4999-5p ; hsa-mir-1537-5p ; hsa-mir-4797-5p ; hsa-mir-3607-3p ; hsa-mir-6083 ; hsa-mir-498 ; hsa-mir-190a-3p ; hsa-mir-374b-5p ; hsa-mir-374a-5p ; hsa-mir-5681b ; hsa-mir-4795-5p ; hsa-mir-205-3p ; hsa-mir-410-3p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-369-3p ; hsa-mir-3163 ; hsa-mir-4536-5p ; hsa-mir-876-3p ; hsa-mir-323a-5p ; hsa-mir-4538 ; hsa-mir-4453 ; hsa-mir-450b-5p ; hsa-mir-4666b ; hsa-mir-5011-3p ; hsa-mir-6797-3p ; hsa-mir-6076 ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-651-3p ; hsa-mir-3133 ; hsa-mir-3529-5p ; hsa-mir-379-5p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30c-5p ; hsa-mir-30b-5p ; hsa-mir-30a-5p ; hsa-mir-203a-3p ; hsa-let-7a-5p ; hsa-mir-101-3p

Nearest miRNA

hsa-mir-10398/Upstream/5906495; hsa-mir-1202/Downstream/1752934;

Nearest TSS

ENST00000381078/Upstream/74143; ENST00000369120/Downstream/105117;

Nearest CpG islands

None/Target, chr6-CpG: 120/Upstream/77917, chr6-CpG: 138/Downstream/105195

Nearest cancer related gene

LIN28B(OG, No orient, 0)

Upstream sequence

TATATTAGTCTGAACCATGGATTTCTGCATTTTTT

Junction sequence

TATATTAGTCTGAACCATGGATTTCTGCATTTTTTCTACAGCCTCCTAGTACAAAGATCATTAACCTAATCTCCTCCCCCAACTCCTC

* Color: Human Sequence / Virus Sequence / Overlapped sequence / Unknown sequence

Reference

Ding, D., et al. Recurrent targeted genes of hepatitis B virus in the liver cancer genomes identified by a next-generation sequencing-based approach. PLoS Genet ,2010,8(12): e1003065.