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mmu_circEcpas_900
Basic information of circular RNA
PanCircBase ID:
mmu_circEcpas_900
mm39_Chr. Position ID:
chr4|58861524|58879134|-
Gene name:
Ecpas
Transcript:
ENSMUST00000102889.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,2822,7890,11064,13899,15520,17493
Genomic length:
17610
Exon/intron sizes in nt:
120,82,140,172,150,119,117
Flanking exon/introns:
chr4:58853736-58861524|chr4:58879134-58885367
Splice length:
900
Other database IDs:
circBase: mmu_circ_0011715, CIRCpedia: MMU_CIRCpedia_24286
CIRCpedia: HSA_CIRCpedia_111778
Human Ortholog IDs:
Mature spliced Sequence:
GTAATGGAACTGCTGGTCCATCTGAATAAACGTATAAAAAGCCGCCCCAAAATACAGCTTCCAGTAGAAACACTATTGGTTCAGTACCAGGACCCTGCTGCAGTTTCCTTTGTCACGAATTTTACTATAATTTATGTTAAGATGGGCTATCCTCGCCTGCCAGTGGAAAAACAATGTGAGCTGGCCCCTACGCTTCTTACTGCCATGGAAGGGAAACCTCAGCCACAGCAGGATAGCTTAATGCATCTTTTAATACCAACTCTTTTTCACATGAAGTACCCGGCTGAATCATCAAAGTCAGCTTCTCCTTTTAATCTTGCTGAGAAACCAAAGACTGTGCAGCTGCTCTTGGACTTTATGCTAGATGTCCTTCTGATGCCTTACGGATATGTGTTAAATGAATCCCAGAGTCGCCAAAATTCATCATCATCATCACAGGGTTCTTCTTCAAACAGTGGGGGAGGTTCTGGAATCCCACAGCCTCCCCCAGGAATGAGCTTTTATGCAGCTAAACGAGTTATTGGTGACAACCCGTGGACACCTGAACAGTTGGAACAGTGCAAATTGGGTATAGTGAAGTTCATAGAAGCTGAGCAGGTGCCTGAACTTGAAGCTGTTCTCCACCTGGTGATTGCTTCTAGTGACACACGCCATAGTGTCGCGACAGCCGCAGACCTGGAGTTGAAAAGCAAGCAGAGCTTAATTGACTGGAATAACCCTGCCATCATTAATAAGATGTACAAGGTGTACCTTGGGGATATACCACTGAAAACAAAAGAGGGAGCAGTTCTAAAGCCGGAGCTGAAAAGAGACCCAGTCAGTACTAGAGTGAAGTTAAAGATTGTTCCTCATCTCCTGCGCTCTAGACAAGCTGCTGAAACGTTCCCAGCTAACATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCTCTAGACAAGCTGCTGA
59.83
GCAGGGTCCTGGTACTGAAC
60.04
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTCATCTCCTGCGCTCTA
59.82
GCAGGGTCCTGGTACTGAAC
60.04
153
PCR template sequence:
GCTGAAAAGAGACCCAGTCAGTACTAGAGTGAAGTTAAAGATTGTTCCTCATCTCCTGCGCTCTAGACAAGCTGCTGAAACGTTCCCAGCTAACATTCAGGTAATGGAACTGCTGGTCCATCTGAATAAACGTATAAAAAGCCGCCCCAAAATACAGCTTCCAGTAGAAACACTATTGGTTCAGTACCAGGACCCTGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-18a-5p(1), mmu-miR-143-3p(1), mmu-miR-363-3p(1), mmu-miR-370-3p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCTAACATTCAGGTAATGGAACTGC
siRNA sets
AGTTCCATTACCTGAATGT, CATTACCTGAATGTTAGCT, CCATTACCTGAATGTTAGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCECPAS_900_ORF_1
1.0667
0.101678046
0.999958175
1797
ORF sequence:
ATGGAACTGCTGGTCCATCTGAATAAACGTATAAAAAGCCGCCCCAAAATACAGCTTCCAGTAGAAACACTATTGGTTCAGTACCAGGACCCTGCTGCAGTTTCCTTTGTCACGAATTTTACTATAATTTATGTTAAGATGGGCTATCCTCGCCTGCCAGTGGAAAAACAATGTGAGCTGGCCCCTACGCTTCTTACTGCCATGGAAGGGAAACCTCAGCCACAGCAGGATAGCTTAATGCATCTTTTAATACCAACTCTTTTTCACATGAAGTACCCGGCTGAATCATCAAAGTCAGCTTCTCCTTTTAATCTTGCTGAGAAACCAAAGACTGTGCAGCTGCTCTTGGACTTTATGCTAGATGTCCTTCTGATGCCTTACGGATATGTGTTAAATGAATCCCAGAGTCGCCAAAATTCATCATCATCATCACAGGGTTCTTCTTCAAACAGTGGGGGAGGTTCTGGAATCCCACAGCCTCCCCCAGGAATGAGCTTTTATGCAGCTAAACGAGTTATTGGTGACAACCCGTGGACACCTGAACAGTTGGAACAGTGCAAATTGGGTATAGTGAAGTTCATAGAAGCTGAGCAGGTGCCTGAACTTGAAGCTGTTCTCCACCTGGTGATTGCTTCTAGTGACACACGCCATAGTGTCGCGACAGCCGCAGACCTGGAGTTGAAAAGCAAGCAGAGCTTAATTGACTGGAATAACCCTGCCATCATTAATAAGATGTACAAGGTGTACCTTGGGGATATACCACTGAAAACAAAAGAGGGAGCAGTTCTAAAGCCGGAGCTGAAAAGAGACCCAGTCAGTACTAGAGTGAAGTTAAAGATTGTTCCTCATCTCCTGCGCTCTAGACAAGCTGCTGAAACGTTCCCAGCTAACATTCAGGTAATGGAACTGCTGGTCCATCTGAATAAACGTATAAAAAGCCGCCCCAAAATACAGCTTCCAGTAGAAACACTATTGGTTCAGTACCAGGACCCTGCTGCAGTTTCCTTTGTCACGAATTTTACTATAATTTATGTTAAGATGGGCTATCCTCGCCTGCCAGTGGAAAAACAATGTGAGCTGGCCCCTACGCTTCTTACTGCCATGGAAGGGAAACCTCAGCCACAGCAGGATAGCTTAATGCATCTTTTAATACCAACTCTTTTTCACATGAAGTACCCGGCTGAATCATCAAAGTCAGCTTCTCCTTTTAATCTTGCTGAGAAACCAAAGACTGTGCAGCTGCTCTTGGACTTTATGCTAGATGTCCTTCTGATGCCTTACGGATATGTGTTAAATGAATCCCAGAGTCGCCAAAATTCATCATCATCATCACAGGGTTCTTCTTCAAACAGTGGGGGAGGTTCTGGAATCCCACAGCCTCCCCCAGGAATGAGCTTTTATGCAGCTAAACGAGTTATTGGTGACAACCCGTGGACACCTGAACAGTTGGAACAGTGCAAATTGGGTATAGTGAAGTTCATAGAAGCTGAGCAGGTGCCTGAACTTGAAGCTGTTCTCCACCTGGTGATTGCTTCTAGTGACACACGCCATAGTGTCGCGACAGCCGCAGACCTGGAGTTGAAAAGCAAGCAGAGCTTAATTGACTGGAATAACCCTGCCATCATTAATAAGATGTACAAGGTGTACCTTGGGGATATACCACTGAAAACAAAAGAGGGAGCAGTTCTAAAGCCGGAGCTGAAAAGAGACCCAGTCAGTACTAGAGTGAAGTTAAAGATTGTTCCTCATCTCCTGCGCTCTAGACAAGCTGCTGAAACGTTCCCAGCTAACATTCAG
Peptide sequence:
MELLVHLNKRIKSRPKIQLPVETLLVQYQDPAAVSFVTNFTIIYVKMGYPRLPVEKQCELAPTLLTAMEGKPQPQQDSLMHLLIPTLFHMKYPAESSKSASPFNLAEKPKTVQLLLDFMLDVLLMPYGYVLNESQSRQNSSSSSQGSSSNSGGGSGIPQPPPGMSFYAAKRVIGDNPWTPEQLEQCKLGIVKFIEAEQVPELEAVLHLVIASSDTRHSVATAADLELKSKQSLIDWNNPAIINKMYKVYLGDIPLKTKEGAVLKPELKRDPVSTRVKLKIVPHLLRSRQAAETFPANIQVMELLVHLNKRIKSRPKIQLPVETLLVQYQDPAAVSFVTNFTIIYVKMGYPRLPVEKQCELAPTLLTAMEGKPQPQQDSLMHLLIPTLFHMKYPAESSKSASPFNLAEKPKTVQLLLDFMLDVLLMPYGYVLNESQSRQNSSSSSQGSSSNSGGGSGIPQPPPGMSFYAAKRVIGDNPWTPEQLEQCKLGIVKFIEAEQVPELEAVLHLVIASSDTRHSVATAADLELKSKQSLIDWNNPAIINKMYKVYLGDIPLKTKEGAVLKPELKRDPVSTRVKLKIVPHLLRSRQAAETFPANIQ
IRESfinder result
IRESfinder score
0.688030064
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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