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mmu_ciDdx5_364
Basic information of circular RNA
PanCircBase ID:
mmu_ciDdx5_364
mm39_Chr. Position ID:
chr11|106677370|106677734|-
Gene name:
Ddx5
Transcript:
ENSMUST00000127481.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
364
Exon/intron sizes in nt:
364
Flanking exon/introns:
chr11:106673510-106677734
Splice length:
364
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTTTATAAATGTGGCTTCTTCATGCTGTAACTCAGTAACTGCTTCTAGTCAATTAGATGGAAATGTAATAGGTGCCTTGCAAATGGAGAGTTGCTTGTGGTGCACTTCCATTGAATTTTTCTTGTGATATATGGTGCCCTATTTTAATCCTGTCACTGGGGAAACAGGTTTAGCAGTCTATTGGGCTTCATAGAGACTCAATTTTCATTTAAATAAGTATTATAAATTAATTATTAATTTTTGTTGCCAAGTAGAGTTCTTATTTATGGGTCCAGATTTTTAGAAATAAGTATGTTTAAAAGTTTATTGAGCTATAGGGAGCATGGCAGAAGTCTGAGGCTGAGATAATTTGTTTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTATAGGGAGCATGGCAGA
59.02
TCTCCATTTGCAAGGCACCT
59.89
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCTATAGGGAGCATGGCA
59.02
TCTCCATTTGCAAGGCACCT
59.89
145
PCR template sequence:
TATTTATGGGTCCAGATTTTTAGAAATAAGTATGTTTAAAAGTTTATTGAGCTATAGGGAGCATGGCAGAAGTCTGAGGCTGAGATAATTTGTTTTTCAGGTGAGTTTATAAATGTGGCTTCTTCATGCTGTAACTCAGTAACTGCTTCTAGTCAATTAGATGGAAATGTAATAGGTGCCTTGCAAATGGAGAGTTGCTT
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-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-136-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-369-3p(1), mmu-miR-3065-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTGTTTTTCAGGTGAGTTTATAAA
siRNA sets
ATAAACTCACCTGAAAAAC,TAAACTCACCTGAAAAACA,TTTATAAACTCACCTGAAA
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
0.924225443
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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