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mmu_circPpp1r21_571
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r21_571
mm39_Chr. Position ID:
chr17|88863009|88873161|+
Gene name:
Ppp1r21
Transcript:
ENSMUST00000038551.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,10,11,12,13
Exon/intron offsets:
0,3007,3195,6527,10059
Genomic length:
10152
Exon/intron sizes in nt:
150,102,89,137,93
Flanking exon/introns:
chr17:88862330-88863009|chr17:88873161-88876507
Splice length:
571
Other database IDs:
circAtlas: mmu-Ppp1r21_0014
Human Ortholog IDs:
Mature spliced Sequence:
CTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAAGTACAGAGCCAGATGGACTCCTTCGAACAAACTACACTTCCGTCTTAACAAATGTTGGTGCTGCTCTGCATGGATTTCATGATGTCATGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGCCAGATGGACTCCT
59.96
GCCGGTACAAGATCCTGAACA
60.07
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAGCCAGATGGACTCCT
59.96
GAGCCGGTACAAGATCCTGA
58.89
152
PCR template sequence:
TTGCCAAGTACAGAGCCAGATGGACTCCTTCGAACAAACTACACTTCCGTCTTAACAAATGTTGGTGCTGCTCTGCATGGATTTCATGATGTCATGAAAGCTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-149-5p(1), mmu-miR-182-5p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGTCATGAAAGCTGAAGATGCGAG
siRNA sets
CATCTTCAGCTTTCATGAC, ATCTTCAGCTTTCATGACA, CTTCAGCTTTCATGACATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R21_571_ORF_1
0.8615
0.090349435
0.831225532
678
ORF sequence:
ATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAAGTACAGAGCCAGATGGACTCCTTCGAACAAACTACACTTCCGTCTTAACAAATGTTGGTGCTGCTCTGCATGGATTTCATGATGTCATGAAAGCTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGA
Peptide sequence:
MRDIAGQALAFVQDLVPALLNFHTYTEQRIQIFPVDSAIDTISPLNQKFSQYLHENASYVRPLEEGMLHLFESITEDTVTVLETTVKLKMFSDHLTSYVRFLRKILPYQLKSLEEECESSLCTPALRARNLELSQDMKTMTAVFEKLQTYVTLLALPSTEPDGLLRTNYTSVLTNVGAALHGFHDVMKAEDARYSWAGPGFCSGSCTGSSELSHLYRTEDSNFPC
IRESfinder result
IRESfinder score
0.600767238
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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