hsa-mir-3944-5p _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10016330
Fusion event
HBV-chr4 integration
Validated
No
Detection method
RNA-Seq
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Good
Reported year
2012
PubMed ID
22267523
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Start
1788
End
1810
Orient
-
Integrated sequence
GCATAAATTGGTCTGCGCACCAG
Host Sequence
Chromosome
chr4
Cytoband
q23
Reference genome
GRCh37/hg19
Start
100056186/99135035 (Hg38)
End
100056295/99135144 (Hg38)
Orient
+
Location type
Intronic
Target gene
ADH4 ; LOC100507053
miRNAs that regulate target gene
hsa-mir-4666a-5p ; hsa-mir-8068 ; hsa-mir-143-5p ; hsa-mir-3944-5p ; hsa-mir-5087 ; hsa-mir-4764-5p ; hsa-mir-657 ; hsa-mir-3665 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-6841-5p ; hsa-mir-1265 ; hsa-mir-376c-3p
Nearest miRNA
hsa-mir-12113/Upstream/137575; hsa-mir-1243/Downstream/2105651;
Nearest TSS
ENST00000502981/Upstream/46084; ENST00000506454/Downstream/1393;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/46057, chr4-CpG: 40/Downstream/428426
Upstream sequence
ggttgtcatgtaaattcaagaaatgcagagaacccttgtgagatactatgtaagacaaccatccccaagacacacagtcatcagattctccaaggtagat
Downstream sequence
acagaggctggtggtggctgatgcctgtaatcctagcactttgggaggtcgaagtgggaggactgcttgagcctaggagttcaagaccagcctgggcgac
Target sequence
ctggagctatcacaatgaacaacagagagttcttgccctcaaggaacaaatagtacaataggacaaaaaaataaatgggagatttctctatagtgtgataagaatgaag
Reference
Jiang, S., et al. Re-evaluation of the carcinogenic significance of hepatitis B virus integration in hepatocarcinogenesis. PLoS One ,2012, 7(9): e40363.
Curate