FIP1L1 _LIHC.png
Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS10005362
Fusion event
HBV-FIP1L1 integration
Validated
No
Detection method
PCR and Ultra-deep sequencing
Data source
Curated
Sample type
Nontumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
29861854
Virus Sequence
Virus name
HBV
Reference genome
AP011098
Start
1827
Orient
+
Integrated sequence
GACTGGGAGGAGTTGGGGGAGGAGATTAGGTTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGTTCACCAGCACCATGCAACTTTTTCA| |CCTCTGCCTAATCATCTCATGTTCATGTCCTACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATTGACCCGTATAAAGAATTT
Host Sequence
Chromosome
chr4
Cytoband
q12
Reference genome
GRCh37/hg19
Start
54310713/53444546 (Hg38)
End
54310713/53444546 (Hg38)
Orient
-
Location type
Intron
Fragile sites / regions
FRA4B
Target gene
FIP1L1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-877-3p
Nearest miRNA
hsa-mir-12113/Upstream/731799; hsa-mir-1243/Downstream/7478073;
Nearest TSS
ENST00000502981/Upstream/2293; ENST00000507206/Downstream/14005;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/66316, chr4-CpG: 82/Downstream/619528
Nearest cancer related gene
FIP1L1(OG, No orient, 0)
Upstream sequence
TGACTGCCATGGAAGGAATCTCATATTAACAAAGCACTTATTTCTTCAAACTAAAAAGAGCTTCTCATGACAAAATATGTAGAATATTTTACCCTAGTCT
Downstream sequence
TTTCTTTTGCACCTCTTGATCAGTCATTTATTTTAAAAATGCTGTGCATTGTACTAAtttttttttggagacagagtcttgtctgttgcctaggctggcg
Reference
Tu, T., et al. Hepatitis B Virus DNA Integration Occurs Early in the Viral Life Cycle in an In Vitro Infection Model via Sodium Taurocholate Cotransporting Polypeptide-Dependent Uptake of Enveloped Virus Particles. J Virol ,2018,92(11).
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