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mmu_circPpp1r21_328
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r21_328
mm39_Chr. Position ID:
chr17|88866016|88869673|+
Gene name:
Ppp1r21
Transcript:
ENSMUST00000038551.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
10,11,12
Exon/intron offsets:
0,188,3520
Genomic length:
3657
Exon/intron sizes in nt:
1,02,89,137
Flanking exon/introns:
chr17:88863159-88866016|chr17:88869673-88873068
Splice length:
328
Other database IDs:
CIRCpedia: HSA_CIRCpedia_91928
Human Ortholog IDs:
Mature spliced Sequence:
TTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAAGACGATGACAGCCGT
59.47
TGCTCTCGAATAAGTGCAGCA
60.07
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCCCAGGACATGAAGACGA
59.1
TGCTCTCGAATAAGTGCAGCA
60.07
150
PCR template sequence:
GCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAATTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-298-5p(1), mmu-miR-182-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCGCCTTGCCAATTCTCCCAATACC
siRNA sets
ATTGGGAGAATTGGCAAGG, TATTGGGAGAATTGGCAAG, TTGGGAGAATTGGCAAGGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R21_328_ORF_1
0.9426
0.188541342
0.449729392
351
ORF sequence:
ATGTCACTCTCCTCGCCTTGCCAATTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCA
Peptide sequence:
MSLSSPCQFSQYLHENASYVRPLEEGMLHLFESITEDTVTVLETTVKLKMFSDHLTSYVRFLRKILPYQLKSLEEECESSLCTPALRARNLELSQDMKTMTAVFEKLQTYVTLLALP
IRESfinder result
IRESfinder score
0.583143752
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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