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mmu_circPpp1r21_478
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r21_478
mm39_Chr. Position ID:
chr17|88863009|88869673|+
Gene name:
Ppp1r21
Transcript:
ENSMUST00000038551.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
9,10,11,12
Exon/intron offsets:
0,3007,3195,6527
Genomic length:
6664
Exon/intron sizes in nt:
15,01,02,89,137
Flanking exon/introns:
chr17:88862330-88863009|chr17:88869673-88873068
Splice length:
478
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCCAGGACATGAAGACGA
59.1
TGAAAGTTCAGAAGAGCCGGT
59.58
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGAACCTGGAGCTGTCC
59.7
GCCGGTACAAGATCCTGAACA
60.07
148
PCR template sequence:
GCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAACTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-182-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCGCCTTGCCAACTGAAGATGCGAG
siRNA sets
ATCTTCAGTTGGCAAGGCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R21_478_ORF_1
0.7493
0.082576727
0.665326852
585
ORF sequence:
ATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAACTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGA
Peptide sequence:
MRDIAGQALAFVQDLVPALLNFHTYTEQRIQIFPVDSAIDTISPLNQKFSQYLHENASYVRPLEEGMLHLFESITEDTVTVLETTVKLKMFSDHLTSYVRFLRKILPYQLKSLEEECESSLCTPALRARNLELSQDMKTMTAVFEKLQTYVTLLALPTEDARYSWAGPGFCSGSCTGSSELSHLYRTEDSNFPC
IRESfinder result
IRESfinder score
0.653211904
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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