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mmu_ciAcox1_510
Basic information of circular RNA
PanCircBase ID:
mmu_ciAcox1_510
mm39_Chr. Position ID:
chr11|116070606|116071116|-
Gene name:
Acox1
Transcript:
ENSMUST00000130229.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
510
Exon/intron sizes in nt:
510
Flanking exon/introns:
chr11:116069670-116071116
Splice length:
510
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATATTTACTTATTTGTCTATTTTATTTAGTAGTAGATTGTTATTGTTGAAGCAGGTTCTCACGGTGTACCTCAGCCTACCCAAGCTGAGGATCAGGACTGTCCTGGCCCAGCTGCAGAAGGTGATGGGCTTTTTCTCTGACAGTGACTTAGAAGCAGGTGGGCAGTGTGTGAGGAGTACCACCCGCTTGGTGAACCTGCGGCTCTCAAGCCTTTAAGTAATTTAGAATCACCTGAAAGGCCAGTTAGACCTCAGGTTATTAGTCAAGTATAGTGTGTACTTGAGAGGCGGGTGGGGGTGAGTTCAAGGTCAGCCTGTGATACATAGCAAGCCCAGGTCTTCAAATTAAGCCCTTGCTCCAAAATATTCAGAAGGTCAGAATAGGGAGCGAGATTTAGTATTTCAGACGGGTCCAAATGAAGCCAATTTGTTCAGGAAACACAGTTGGAGAATTAAATTAGTACATGGCCTCTCGGCCTCACAGAGACACTTCAGCCTATTTGTTTTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCTCGGCCTCACAGAGACA
60.96
GTCCTGATCCTCAGCTTGGG
59.82
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCTCGGCCTCACAGAGA
60.38
GTCCTGATCCTCAGCTTGGG
59.82
141
PCR template sequence:
GGTCCAAATGAAGCCAATTTGTTCAGGAAACACAGTTGGAGAATTAAATTAGTACATGGCCTCTCGGCCTCACAGAGACACTTCAGCCTATTTGTTTTCCGTATATTTACTTATTTGTCTATTTTATTTAGTAGTAGATTGTTATTGTTGAAGCAGGTTCTCACGGTGTACCTCAGCCTACCCAAGCTGAGGATCAGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-324-3p(1), mmu-miR-377-3p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTATTTGTTTTCCGTATATTTACTTA
siRNA sets
AAGTAAATATACGGAAAAC, AGTAAATATACGGAAAACA, AATATACGGAAAACAAATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIACOX1_510_ORF_1
0.7392
-0.652976291
0.002817016
96
ORF sequence:
ATGGCCTCTCGGCCTCACAGAGACACTTCAGCCTATTTGTTTTCCGTATATTTACTTATTTGTCTATTTTATTTAGTAGTAGATTGTTATTGTTGA
Peptide sequence:
MASRPHRDTSAYLFSVYLLICLFYLVVDCYC
IRESfinder result
IRESfinder score
0.793141573
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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