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mmu_circMcm8_1247
Basic information of circular RNA
PanCircBase ID:
mmu_circMcm8_1247
mm39_Chr. Position ID:
chr2|132663264|132680202|+
Gene name:
Mcm8
Transcript:
ENSMUST00000028831.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,1830,3380,6122,6585,10303,11418,13393,16742
Genomic length:
16938
Exon/intron sizes in nt:
10,41,99,86,15,21,96,30,00,00,00,000
Flanking exon/introns:
chr2:132662048-132663264|chr2:132680202-132680625
Splice length:
1247
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_116636
Human Ortholog IDs:
Mature spliced Sequence:
GTATTAACTAAGGACCTTGAAAGGCATGCCGCCGAATTACAAGCTCAAGAGGGATTGTCTAACGGTGGAGAGACAATGGTAAATGTACCACATATTTATGCAAGAGTGTACAACTATGAGCCCTTGACACACCTCAAGAATATCCGAGCAACTTGCTATGGGAAATACATCTCTATACGAGGGACTGTGGTCCGGGTCAGCAACATAAAGCCTCTTTGCACCAACATGGCTTTTCAGTGCGCTGCATGTGGAGAGATTCAGAGCTTTCCTCTGCCAGATGGAAAATACACCCTTCCTACAAAGTGTCCTGTGCCTGCGTGCCGAGGGAGGTCATTTGCTCCACTGCGCAGCTCTCCTCTCACAGTTACACTGGACTGGCAGTTGATCAAAATCCAGGAGCTGATGTCTGATGCACAGAGAGAAGCTGGTCGGATCCCTCGGACGATAGAATGTGAACTTGTTCACGATCTTGTAGATAGTTGTGTCCCAGGAGATACAGTGACTGTTACTGGAATTGTCAAAGTCTCCAATTCTGAAGAAGGTTCTCGAAATAAGAATGATAAGTGCATGTTCCTTTTGTACATTGAGGCAAATTCTGTTAGCAACAGCAAGGGGCCGAAAGCACAGACTGCAGAAGATGGTTGCAAGCATGGGACACTGATGGAGTTCTCCCTTAAAGACCTCTATGCCATCCGAGAGATCCAGGCTGAAGAGAACCTGCTCAAGCTCGTTGTCAACTCACTCTGTCCTGTCATTTTTGGTCATGAACTCGTCAAAGCAGGTCTGACGTTAGCACTCTTTGGCGGTAGCCAGAAGTACGCAGATGACAAAAACAGAATTCCCATTCGAGGAGACCCACATGTCCTGATTGTTGGAGATCCAGGCTTGGGGAAGAGTCAGATGCTACAGGCAGCATGCAACGTGGCGCCACGTGGTGTGTATGTTTGTGGAAATACCACCACCAGCTCTGGTCTCACTGTGACTCTTTCAAAGGACAGTTCCTCTGGAGATTTTGCTTTGGAAGCTGGTGCCCTTGTACTTGGTGACCAAGGCATCTGTGGAATAGATGAATTTGATAAAATGGGGAACCAACATCAAGCCCTGTTAGAAGCCATGGAACAGCAGAGTATTAGCCTTGCGAAGGCTGGGGTAGTTTGCAGCCTCCCTGCAAGAACTTCCATTATTGCTGCTGCAAATCCAGTCGGAGGACACTACAATAAAGCCAGAACGGTTTCTGAGAATTTAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCTCCCTGCAAGAACTTC
59.96
ACCATTGTCTCTCCACCGTT
58.94
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAGTTTGCAGCCTCCCTG
60.68
CTTGTAATTCGGCGGCATGC
60.59
142
PCR template sequence:
GGGTAGTTTGCAGCCTCCCTGCAAGAACTTCCATTATTGCTGCTGCAAATCCAGTCGGAGGACACTACAATAAAGCCAGAACGGTTTCTGAGAATTTAAAGTATTAACTAAGGACCTTGAAAGGCATGCCGCCGAATTACAAGCTCAAGAGGGATTGTCTAACGGTGGAGAGACAATGGTAAATGTACCACATATTTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-15a-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-381-3p(1), mmu-miR-128-3p(1), mmu-miR-194-5p(1), mmu-miR-802-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-129-5p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGAGAATTTAAAGTATTAACTAAGG
siRNA sets
TAATACTTTAAATTCTCAG, TTAATACTTTAAATTCTCA, TAGTTAATACTTTAAATTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMCM8_1247_ORF_1
0.9469
0.144615816
0.996161472
1179
ORF sequence:
ATGGTAAATGTACCACATATTTATGCAAGAGTGTACAACTATGAGCCCTTGACACACCTCAAGAATATCCGAGCAACTTGCTATGGGAAATACATCTCTATACGAGGGACTGTGGTCCGGGTCAGCAACATAAAGCCTCTTTGCACCAACATGGCTTTTCAGTGCGCTGCATGTGGAGAGATTCAGAGCTTTCCTCTGCCAGATGGAAAATACACCCTTCCTACAAAGTGTCCTGTGCCTGCGTGCCGAGGGAGGTCATTTGCTCCACTGCGCAGCTCTCCTCTCACAGTTACACTGGACTGGCAGTTGATCAAAATCCAGGAGCTGATGTCTGATGCACAGAGAGAAGCTGGTCGGATCCCTCGGACGATAGAATGTGAACTTGTTCACGATCTTGTAGATAGTTGTGTCCCAGGAGATACAGTGACTGTTACTGGAATTGTCAAAGTCTCCAATTCTGAAGAAGGTTCTCGAAATAAGAATGATAAGTGCATGTTCCTTTTGTACATTGAGGCAAATTCTGTTAGCAACAGCAAGGGGCCGAAAGCACAGACTGCAGAAGATGGTTGCAAGCATGGGACACTGATGGAGTTCTCCCTTAAAGACCTCTATGCCATCCGAGAGATCCAGGCTGAAGAGAACCTGCTCAAGCTCGTTGTCAACTCACTCTGTCCTGTCATTTTTGGTCATGAACTCGTCAAAGCAGGTCTGACGTTAGCACTCTTTGGCGGTAGCCAGAAGTACGCAGATGACAAAAACAGAATTCCCATTCGAGGAGACCCACATGTCCTGATTGTTGGAGATCCAGGCTTGGGGAAGAGTCAGATGCTACAGGCAGCATGCAACGTGGCGCCACGTGGTGTGTATGTTTGTGGAAATACCACCACCAGCTCTGGTCTCACTGTGACTCTTTCAAAGGACAGTTCCTCTGGAGATTTTGCTTTGGAAGCTGGTGCCCTTGTACTTGGTGACCAAGGCATCTGTGGAATAGATGAATTTGATAAAATGGGGAACCAACATCAAGCCCTGTTAGAAGCCATGGAACAGCAGAGTATTAGCCTTGCGAAGGCTGGGGTAGTTTGCAGCCTCCCTGCAAGAACTTCCATTATTGCTGCTGCAAATCCAGTCGGAGGACACTACAATAAAGCCAGAACGGTTTCTGAGAATTTAAAGTATTAA
Peptide sequence:
MVNVPHIYARVYNYEPLTHLKNIRATCYGKYISIRGTVVRVSNIKPLCTNMAFQCAACGEIQSFPLPDGKYTLPTKCPVPACRGRSFAPLRSSPLTVTLDWQLIKIQELMSDAQREAGRIPRTIECELVHDLVDSCVPGDTVTVTGIVKVSNSEEGSRNKNDKCMFLLYIEANSVSNSKGPKAQTAEDGCKHGTLMEFSLKDLYAIREIQAEENLLKLVVNSLCPVIFGHELVKAGLTLALFGGSQKYADDKNRIPIRGDPHVLIVGDPGLGKSQMLQAACNVAPRGVYVCGNTTTSSGLTVTLSKDSSSGDFALEAGALVLGDQGICGIDEFDKMGNQHQALLEAMEQQSISLAKAGVVCSLPARTSIIAAANPVGGHYNKARTVSENLKY
IRESfinder result
IRESfinder score
0.552558742
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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