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mmu_ciPpm1b_874
Basic information of circular RNA
PanCircBase ID:
mmu_ciPpm1b_874
mm39_Chr. Position ID:
chr17|85322863|85323737|+
Gene name:
Ppm1b
Transcript:
ENSMUST00000234851.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
874
Exon/intron sizes in nt:
874
Flanking exon/introns:
chr17:85322863-85330459
Splice length:
874
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGCCTTATAACCTTCTAAAATGCTTTTGATTCTGAAAATTGGGGGAAACTTTTAATCACATTTTCTTCAATACAAGGGGAAATATTCTTGTGAATTCACACTGTTTTGTGATATGAGCAGAAACCATTAGCATTTCCCACCATTGCCTCCCATTTGTGTTCCCCGTACTTACCACTCTTAGCATTGCCTGGACTCTACAGTATTTTTTGCCAACCTCAGGCATCTGGTTACAACTGTATTGAATTTTTGGCCCTAGAAAAACAAAATGGCCTACAAATGAACAAATGTGCCTGGGGTGCGTGGGAATAGCTAGCTATCCTCTGAAGGTGCGTTATGGGTTTGTTTGGGGTTTTTAAAGCAACACAAAACACAGCACAGACGCACGTAAGAGTAAGGACTGAGAAAGGTCCGAGCTTCCCAGCTCACTAAGGCGGGAGGAAGCCTTGTTAGTTCTGTGGCCTGGAGTTTCATGTGAGCAATTTACTATAGGATATGTATTTATTATTAATTGCTATTTAATTTTTTCCAATTTACTTGTATTACCAAATTGGGTTCTCCAATAATGTTGACATTGTAACACTGCCTTGCTTCAAGATCCGGTGTCCGGCAATAGTATAAACCCTTAAACACTGAGCATGTCTGCTGCGTCCTTCAGCTCTCCTAGAAGAGCTTGGAAAACCAAATGAATTAATTTATGGCTATTTATAATTTGCTTTGTCATCTTACTGGCTTTGAATTATTTTAATTGATGAGATTTTTCCTTTATAATGTAAATTGTGATCTTTTTGTTTTACATGTGGGTTTCTATAGTTTTAATTTTTTCAGCTTTTAAGATACAAGTTTTATGTAATTTGATATAATTTTTAACTGTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGATCTTTTTGTTTTACATGTGGG
59.02
CCCCCAATTTTCAGAATCAAAAGC
59.3
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGATCTTTTTGTTTTACATGTGGGT
59.02
CCCCCAATTTTCAGAATCAAAAGC
59.3
143
PCR template sequence:
AATTGTGATCTTTTTGTTTTACATGTGGGTTTCTATAGTTTTAATTTTTTCAGCTTTTAAGATACAAGTTTTATGTAATTTGATATAATTTTTAACTGTTGTAGCCTTATAACCTTCTAAAATGCTTTTGATTCTGAAAATTGGGGGAAACTTTTAATCACATTTTCTTCAATACAAGGGGAAATATTCTTGTGAATTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-34c-5p(1), mmu-miR-200c-3p(1), mmu-miR-298-5p(1), mmu-miR-495-3p(1), mmu-miR-340-5p(1), mmu-miR-34b-5p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
ATTTTTAACTGTTGTAGCCTTATAAC
siRNA sets
GTTATAAGGCTACAACAGT, TATAAGGCTACAACAGTTA, ATAAGGCTACAACAGTTAA
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
0.917465223
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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