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mmu_circPpp6r3_1349
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp6r3_1349
mm39_Chr. Position ID:
chr19|3540773|3576934|-
Gene name:
Ppp6r3
Transcript:
ENSMUST00000025846.16
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
12,11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,1592,3112,5748,16468,21155,23880,27471,30960,35928
Genomic length:
36161
Exon/intron sizes in nt:
6,51,50,15,31,30,11,41,00,00,00,00,00,000
Flanking exon/introns:
chr19:3537091-3540773|chr19:3576934-3594107
Splice length:
1349
Other database IDs:
CIRCpedia: MMU_CIRCpedia_227908, circAtlas: mmu-Ppp6r3_0015
circAtlas: hsa-PPP6R3_0017, CIRCpedia: HSA_CIRCpedia_350778
Human Ortholog IDs:
Mature spliced Sequence:
AACAGCATGTTTTGGAAATTTGATCTTCACTCATCATCCCACATAGACACGCTTCTAGAGAGAGAAGATGTGACACTGAAGGAGCTAATGGATGAGGAGGATGTTCTACAGGAGTGTAAAGCACAGAACCGCAAGCTCATAGAATTTCTGTTAAAAGCAGAATGTCTGGAAGATTTAGTCTCATTCATTATAGAAGAACCACCTCAAGATATGGATGAGAAGATCCGATACAAGTATCCAAATATATCTTGTGAGTTGCTCACATCTGATGTCTCCCAGATGAATGATAGACTGGGGGAAGATGAGTCCTTGCTAATGAAATTGTATAGCTTCCTCCTAAATGAGTCCCCCTTGAACCCACTACTCGCCAGTTTCTTCAGCAAGGTGCTAAGTATTCTTATCAGCAGAAAACCAGAACAGATTGTGGATTTCTTGAAAAAGAAGCGTGATTTTGTGGATCTCATTATAAAGCACATAGGAACTTCTGCTATCATGGATTTATTGCTCAGGCTCTTGACATGTATTGAGCCTCCACAACCCAGGCAAGATGTTCTGAATTGGCTAAATGAGGAGAGGATTATCCAGAGGCTTGTGGAAATAGTTCACCCATCGCAAGAAGAAGATCGGCATTCAAATGCCTCACAATCACTTTGTGAAATTGTTCGCCTGAGCAGAGACCAGATGTTACAAGTTCAGAACAGTACAGAGCCAGACCCCCTGCTTGCCACTCTAGAAAAGCAAGAAATTATTGAGCAGCTTCTGTCAAATATTTTTCACAAGGAGAAGAATGAATCGGCCATAGTCAGTGCAATTCAGATTTTGCTGACTTTGCTTGAGACTCGACGGCCAACGTTTGAAGGCCATATAGAAATCTGCCCCCCGGGCATGAGTCATTCAGCTTGTTCAGTTAACAAGAGTGTTCTTGAAGCCATCCGAGGAAGACTTGGATCTTTCCATGAACTCCTACTCGAGCCACCCAAGAAAAGTGTGATGAAGACTACATGGGGTATATTGGACCCACCTGTGGGGAATACTCGATTAAATGTCATTAGGTTGATATCCAGCCTGCTCCAAACCAATACCAGCAGCATAAATGGAGACCTGATGGAACTGAACAGCATTGGCGTCATATTGGATATGTTCTTCAAGTACACATGGAATAACTTTCTACACACGCAAGTGGAAATTTGCATTGCTCTCATTCTGGCCAGTCCTTTTGAGAATGCAGAGAATGGCACAATTACTGATCAAGACTCCACTGGTGACAATTTGTTATTGAAGCATCTTTTTCAAAAGTGTCAGTTAATAGAGCGAATACTTGAAGCCTGGGACACAAATGAGAAGAAACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGAATACTTGAAGCCTGGG
60.41
CCTCCTCATCCATTAGCTCCT
58.38
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCGAATACTTGAAGCCTGGG
60.41
CCTCCTCATCCATTAGCTCCTT
59.02
140
PCR template sequence:
AAGACTCCACTGGTGACAATTTGTTATTGAAGCATCTTTTTCAAAAGTGTCAGTTAATAGAGCGAATACTTGAAGCCTGGGACACAAATGAGAAGAAACAAACAGCATGTTTTGGAAATTTGATCTTCACTCATCATCCCACATAGACACGCTTCTAGAGAGAGAAGATGTGACACTGAAGGAGCTAATGGATGAGGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-32-5p(1), mmu-miR-92a-3p(1), mmu-miR-335-5p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-149-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-340-5p(1), mmu-miR-802-5p(1), mmu-miR-190b-5p(1), mmu-miR-544-5p(1), mmu-miR-296-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGAGAAGAAACAAACAGCATGTTTT
siRNA sets
CATGCTGTTTGTTTCTTCT, ATGCTGTTTGTTTCTTCTC, AACATGCTGTTTGTTTCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP6R3_1349_ORF_1
1.0183
0.094188129
0.999085387
1389
ORF sequence:
ATGTTTTGGAAATTTGATCTTCACTCATCATCCCACATAGACACGCTTCTAGAGAGAGAAGATGTGACACTGAAGGAGCTAATGGATGAGGAGGATGTTCTACAGGAGTGTAAAGCACAGAACCGCAAGCTCATAGAATTTCTGTTAAAAGCAGAATGTCTGGAAGATTTAGTCTCATTCATTATAGAAGAACCACCTCAAGATATGGATGAGAAGATCCGATACAAGTATCCAAATATATCTTGTGAGTTGCTCACATCTGATGTCTCCCAGATGAATGATAGACTGGGGGAAGATGAGTCCTTGCTAATGAAATTGTATAGCTTCCTCCTAAATGAGTCCCCCTTGAACCCACTACTCGCCAGTTTCTTCAGCAAGGTGCTAAGTATTCTTATCAGCAGAAAACCAGAACAGATTGTGGATTTCTTGAAAAAGAAGCGTGATTTTGTGGATCTCATTATAAAGCACATAGGAACTTCTGCTATCATGGATTTATTGCTCAGGCTCTTGACATGTATTGAGCCTCCACAACCCAGGCAAGATGTTCTGAATTGGCTAAATGAGGAGAGGATTATCCAGAGGCTTGTGGAAATAGTTCACCCATCGCAAGAAGAAGATCGGCATTCAAATGCCTCACAATCACTTTGTGAAATTGTTCGCCTGAGCAGAGACCAGATGTTACAAGTTCAGAACAGTACAGAGCCAGACCCCCTGCTTGCCACTCTAGAAAAGCAAGAAATTATTGAGCAGCTTCTGTCAAATATTTTTCACAAGGAGAAGAATGAATCGGCCATAGTCAGTGCAATTCAGATTTTGCTGACTTTGCTTGAGACTCGACGGCCAACGTTTGAAGGCCATATAGAAATCTGCCCCCCGGGCATGAGTCATTCAGCTTGTTCAGTTAACAAGAGTGTTCTTGAAGCCATCCGAGGAAGACTTGGATCTTTCCATGAACTCCTACTCGAGCCACCCAAGAAAAGTGTGATGAAGACTACATGGGGTATATTGGACCCACCTGTGGGGAATACTCGATTAAATGTCATTAGGTTGATATCCAGCCTGCTCCAAACCAATACCAGCAGCATAAATGGAGACCTGATGGAACTGAACAGCATTGGCGTCATATTGGATATGTTCTTCAAGTACACATGGAATAACTTTCTACACACGCAAGTGGAAATTTGCATTGCTCTCATTCTGGCCAGTCCTTTTGAGAATGCAGAGAATGGCACAATTACTGATCAAGACTCCACTGGTGACAATTTGTTATTGAAGCATCTTTTTCAAAAGTGTCAGTTAATAGAGCGAATACTTGAAGCCTGGGACACAAATGAGAAGAAACAAACAGCATGTTTTGGAAATTTGATCTTCACTCATCATCCCACATAG
Peptide sequence:
MFWKFDLHSSSHIDTLLEREDVTLKELMDEEDVLQECKAQNRKLIEFLLKAECLEDLVSFIIEEPPQDMDEKIRYKYPNISCELLTSDVSQMNDRLGEDESLLMKLYSFLLNESPLNPLLASFFSKVLSILISRKPEQIVDFLKKKRDFVDLIIKHIGTSAIMDLLLRLLTCIEPPQPRQDVLNWLNEERIIQRLVEIVHPSQEEDRHSNASQSLCEIVRLSRDQMLQVQNSTEPDPLLATLEKQEIIEQLLSNIFHKEKNESAIVSAIQILLTLLETRRPTFEGHIEICPPGMSHSACSVNKSVLEAIRGRLGSFHELLLEPPKKSVMKTTWGILDPPVGNTRLNVIRLISSLLQTNTSSINGDLMELNSIGVILDMFFKYTWNNFLHTQVEICIALILASPFENAENGTITDQDSTGDNLLLKHLFQKCQLIERILEAWDTNEKKQTACFGNLIFTHHPT
IRESfinder result
IRESfinder score
0.666915539
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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