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mmu_ciClk3_614
Basic information of circular RNA
PanCircBase ID:
mmu_ciClk3_614
mm39_Chr. Position ID:
chr9|57658405|57659019|-
Gene name:
Clk3
Transcript:
ENSMUST00000216095.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
614
Exon/intron sizes in nt:
614
Flanking exon/introns:
chr9:57658404-57659019
Splice length:
614
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCAGTTTCTGGCTCCCCCAGCTCAGCCCATGCCAAGGAGACCCCAGGCATTGGGCAAACAAGCAGCAGAGGCAGGATGGGCAGCCAATAGCTGCCTGATCGTCTCAGTTCTCTGTGAGGCTTTCTGCGTGCTGGCCTTGAGGGGCTCTTAGCCCTGCCCCTGTCCACAGGGTGGCTGAGAATATAATGGGGGAAAAAACACAGAAGAGCCAACTGTCAGACTGCTATTTCCTGTCCCTCTCTCTTCTCTGAATTTTGGGAAGAATTAGGCAGGACTGAGGCAGGGGGAGGGAAGACCTAGATGTGACTAAGGAGGCCTGTCAACTGTAATTTGGTACCTGGACAAGTGCATTTTGCAGAGGTGATTTCTACCCACCCATCAGAACTTTGCATGTGGGGTAGAGGTACCAACCCAGCAAGATCCCACCCAGTAGCCTAAGTTCTGAGCATGAAAGGAAATGAGTGGCTGTTCTGTCCTGGAAGGCAGAAGTAGTCCTCCAAGGAGGCATCATTGCCTCCTCAACCCATCCCAGCAAGGCATCCCAGAGGCAAGGGGACTGCGGTGGCTTCCCACAACCCTGCCGTCCAACTGAGGCACCTTGTGTCCTTGAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCAACCCATCCCAGCAAGG
60.68
CTGCTGCTTGTTTGCCCAAT
59.97
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCAACCCATCCCAGCAAG
60.68
CTGCTGCTTGTTTGCCCAAT
59.97
166
PCR template sequence:
CCTCCTCAACCCATCCCAGCAAGGCATCCCAGAGGCAAGGGGACTGCGGTGGCTTCCCACAACCCTGCCGTCCAACTGAGGCACCTTGTGTCCTTGAGCAGTCAGTTTCTGGCTCCCCCAGCTCAGCCCATGCCAAGGAGACCCCAGGCATTGGGCAAACAAGCAGCAGAGGCAGGATGGGCAGCCAATAGCTGCCTGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-93-5p(1), mmu-miR-146a-5p(1), mmu-miR-18a-5p(1), mmu-miR-326-3p(1), mmu-miR-188-3p(1), mmu-miR-146b-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTCCTTGAGCAGTCAGTTTCTGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.631516427
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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