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mmu_circPpp1r21_952
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1r21_952
mm39_Chr. Position ID:
chr17|88854995|88869673|+
Gene name:
Ppp1r21
Transcript:
ENSMUST00000038551.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,1926,2223,3094,7282,8014,11021,11209,14541
Genomic length:
14678
Exon/intron sizes in nt:
10,21,65,59,95,53,15,00,00,00,000
Flanking exon/introns:
chr17:88852895-88854995|chr17:88869673-88873068
Splice length:
952
Other database IDs:
CIRCpedia: MMU_CIRCpedia_33132, circAtlas: mmu-Ppp1r21_0010
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
AAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAGTTCTTCGAAGCGGACGAGCATCACAGGCACGTGGAAGCGGAGCTGAGGAGTCGGCTGGCCACTCTTGAAACAGAAGCTGCTCAGCACCAAGCTGTGATCGACGGCCTGACCCGGAAGTACATGGAGACCATTGAGAAACTCCAGAGCGACAAGGCAAAGCTAGAAGTAAAATCTCAGACTCTAGAAAAGGAGGCCAAGGAATGTCGACTGCGAACAGAAGAATGTCAATTACAGTTAAAGAATCTTCATGAAGATTTGTCAGGTAGATTAGAGGAATCCTTATCAATCATCAATGAAAAAGTCCCTTTTAATGATACAAAGTGTCATCTGTACAACGCTCTCAATGTTCCCCTGCACAATAGGCGACACCAGCTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACGATGACAGCCGTGTTT
59.97
TATGTGCAGCCGTTCGTTCT
60.04
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAGACGATGACAGCCGTGTT
59.97
TATGTGCAGCCGTTCGTTCT
60.04
160
PCR template sequence:
GCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCAAAAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-155-5p(1), mmu-miR-146a-5p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-24-3p(1), mmu-miR-182-5p(1), mmu-miR-297a-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-1904(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCGCCTTGCCAAAAAAGTGGTGAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1R21_952_ORF_1
1.0903
0.258779316
0.992107499
975
ORF sequence:
ATGTCACTCTCCTCGCCTTGCCAAAAAAGTGGTGAATCTTCTTCTCAGTTGAGCCAAGAGCAGAAGAGCGTCTTTGATGAAGACCTGCAAAAGAAAATCGAGGAGAACGAACGGCTGCACATACAGTTCTTCGAAGCGGACGAGCATCACAGGCACGTGGAAGCGGAGCTGAGGAGTCGGCTGGCCACTCTTGAAACAGAAGCTGCTCAGCACCAAGCTGTGATCGACGGCCTGACCCGGAAGTACATGGAGACCATTGAGAAACTCCAGAGCGACAAGGCAAAGCTAGAAGTAAAATCTCAGACTCTAGAAAAGGAGGCCAAGGAATGTCGACTGCGAACAGAAGAATGTCAATTACAGTTAAAGAATCTTCATGAAGATTTGTCAGGTAGATTAGAGGAATCCTTATCAATCATCAATGAAAAAGTCCCTTTTAATGATACAAAGTGTCATCTGTACAACGCTCTCAATGTTCCCCTGCACAATAGGCGACACCAGCTGAAGATGCGAGATATAGCTGGGCAGGCCCTGGCTTTTGTTCAGGATCTTGTACCGGCTCTTCTGAACTTTCACACCTATACAGAACAGAGGATTCAAATTTTCCCTGTTGATTCTGCCATAGACACTATATCACCATTGAATCAGAAGTTCTCCCAATACCTTCATGAAAACGCATCGTATGTCCGCCCCCTTGAGGAAGGAATGCTGCACTTATTCGAGAGCATTACAGAGGATACTGTGACTGTCCTGGAGACAACTGTGAAATTGAAAATGTTTTCAGATCATCTAACTTCCTACGTACGCTTCCTGAGGAAGATCCTTCCTTATCAGTTAAAAAGTTTAGAAGAAGAGTGTGAATCTTCCCTCTGCACACCTGCACTGAGAGCCAGGAACCTGGAGCTGTCCCAGGACATGAAGACGATGACAGCCGTGTTTGAGAAGCTGCAGACGTATGTCACTCTCCTCGCCTTGCCA
Peptide sequence:
MSLSSPCQKSGESSSQLSQEQKSVFDEDLQKKIEENERLHIQFFEADEHHRHVEAELRSRLATLETEAAQHQAVIDGLTRKYMETIEKLQSDKAKLEVKSQTLEKEAKECRLRTEECQLQLKNLHEDLSGRLEESLSIINEKVPFNDTKCHLYNALNVPLHNRRHQLKMRDIAGQALAFVQDLVPALLNFHTYTEQRIQIFPVDSAIDTISPLNQKFSQYLHENASYVRPLEEGMLHLFESITEDTVTVLETTVKLKMFSDHLTSYVRFLRKILPYQLKSLEEECESSLCTPALRARNLELSQDMKTMTAVFEKLQTYVTLLALP
IRESfinder result
IRESfinder score
0.480714717
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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