VISDB - VIS Detail

Expression analysis of TCGA samples

Basic Information

VIS ID

TVIS10018261

Fusion event

HBV-PARD3 integration

Validated

No

Detection method

RNA-Seq

Data source

Curated

Sample type

Nontumor

Disease

Hepatocellular carcinoma (HCC)

Quality evaluation

Normal

Reported year

2017

PubMed ID

28622513

Virus Sequence

Virus name

HBV

Reference genome

Not given

Start

1801

Host Sequence

Chromosome

chr10

Cytoband

p11.21

Reference genome

GRCh37/hg19

Start

34752148/34463220 (Hg38)

End

34752148/34463220 (Hg38)

Location type

Intronic

Target gene

PARD3

miRNAs that regulate target gene

hsa-mir-483-3p ; hsa-mir-93-3p ; hsa-mir-766-3p ; hsa-mir-218-5p ; hsa-mir-4503 ; hsa-mir-6839-3p ; hsa-mir-6836-3p ; hsa-mir-5001-3p ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-6792-5p ; hsa-mir-629-5p ; hsa-mir-3194-3p ; hsa-mir-7158-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-6778-3p ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-660-3p ; hsa-mir-6796-3p ; hsa-mir-5089-5p ; hsa-mir-7151-3p ; hsa-mir-5095 ; hsa-mir-2861 ; hsa-mir-5589-5p ; hsa-mir-4731-5p ; hsa-mir-661 ; hsa-mir-3116 ; hsa-mir-1254 ; hsa-mir-6506-5p ; hsa-mir-619-5p ; hsa-mir-150-5p ; hsa-mir-6747-3p ; hsa-mir-186-3p ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-6504-3p ; hsa-mir-512-3p ; hsa-mir-4438 ; hsa-mir-520e ; hsa-mir-520d-3p ; hsa-mir-520c-3p ; hsa-mir-520b ; hsa-mir-520a-3p ; hsa-mir-373-3p ; hsa-mir-372-3p ; hsa-mir-302e ; hsa-mir-302d-3p ; hsa-mir-302c-3p ; hsa-mir-302b-3p ; hsa-mir-302a-3p ; 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-1261 ; hsa-mir-129-5p ; hsa-mir-3201 ; hsa-mir-4791 ; hsa-mir-5004-3p ; hsa-mir-7850-5p ; hsa-mir-8068

Nearest miRNA

hsa-mir-1265/Upstream/4094555; hsa-mir-107/Downstream/616378;

Nearest TSS

ENST00000439456/Upstream/36489; ENST00000446211/Downstream/352101;

Nearest CpG islands

None/Target, chr10-CpG: 68/Upstream/1125951, chr10-CpG: 188/Downstream/350976

Upstream sequence

CTTGATAAGTTATCAATTCTGTCTTCTCCAGAGGATGACATTAGTAATTGAAACCTTATCAGTCTCATTGTTTTCCTTCATGAAGATATAACCtttatta

Downstream sequence

tttttaattgaaaaataataaGTGGAATTGTGTAGTTTATAGCATAGCAACTAAAACATCTGGATGAATACAGAAACCATGTGATAGACAGCATTGTAAA

Reference

Cancer Genome Atlas Research Network. Electronic address, w. b. e. and N. Cancer Genome Atlas Research . Comprehensive and Integrative Genomic Characterization of Hepatocellular Carcinoma. Cell ,2017,169(7): 1327-1341 e13