Expression analysis of TCGA samples
Basic Information
VIS ID
TVIS20004529
Fusion event
HPV-STARD3 integration
Validated
Yes
Detection method
Multiplex RT-PCR, APOT assay
Data source
Curated
Sample type
Disease
Cervical carcinoma (CC)
Quality evaluation
Normal
Reported year
2014
PubMed ID
Virus Sequence
Virus name
HPV
Subtype
HPV16
Reference genome
Gene
E1
Start
3564
Integrated sequence
GACCCATACCAAAG CCGTCGCCTTGGGCACCGAAGAAACACAGACGACTATCCAGCGACCAAGATCAGAGCCAGACACCGGAAA CCCCTGCCACACCA| |CTAAGTTGTTGCACAGAGACTCAGTGGACAGTGCTCCAATCCTCACTGCATTTAAC AGCTCACACAAAGGACGGATTAACTGTAATAGTAACACTACAC
Host Sequence
Chromosome
chr17
Cytoband
q21.31
Reference genome
Start
End
37818061/39661808 (Hg38)
Location type
Intronic
Target gene
miRNAs that regulate target gene
hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-6797-5p ; hsa-mir-1249-5p ; hsa-mir-765 ; hsa-mir-766-5p ; hsa-mir-6133 ; hsa-mir-3194-5p ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-605-3p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-940 ; hsa-mir-6808-5p ; hsa-mir-6893-5p ; hsa-mir-6876-5p ; hsa-mir-4476 ; hsa-mir-3714
Nearest miRNA
hsa-mir-1180/Upstream/364299; hsa-mir-10226/Downstream/64687;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/24339, chr17-CpG: 119/Downstream/5632
Upstream sequence
ATCGGCCTCCAGCCCACCCCAGGGGCGGGGTAGAGAAAGGGCAAACTGTGACCGGGACTTGTGCACCCGATTAATTGAATATTAATCACCCCAAGGCCTA
Downstream sequence
ctgagggagaatgaaatggtgatgggatgtgaaccgTGCCTCCCAGGCTTAGCCTTCTCCTGAGCAGGTGTCCCCTCCTGAAGGGGAAGGGGTAAGAAGC
Reference
Lu, X., et al. Multiple-integrations of HPV16 genome and altered transcription of viral oncogenes and cellular genes are associated with the development of cervical cancer. PLoS One ,2014,9(7): e97588.