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mmu_circCcdc18_1704
Basic information of circular RNA
PanCircBase ID:
mmu_circCcdc18_1704
mm39_Chr. Position ID:
chr5|108288724|108328757|+
Gene name:
Ccdc18
Transcript:
ENSMUST00000047677.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
5,6,7,8,9,10,11,12,13,14,15,16
Exon/intron offsets:
0,8052,14900,17666,20608,22789,27150,30754,32892,34007,39539,39955
Genomic length:
40033
Exon/intron sizes in nt:
107,129,97,122,292,125,155,221,111,132,135,78
Flanking exon/introns:
chr5:108286938-108288724|chr5:108328757-108336797
Splice length:
1704
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTGCTATGCTTGAGTCTGCACAAGAGCAGGCAGCCAACATTCCAATCTTAGAAGAACAGATTATAAATTTGGAAGCAGAAGTTTCAGCTCAAGATAAAGTTTTGAGAGAAGCAGAAGATAAATTAGAGCAGAGTCAGAAAATGGTGATTGAAAAGGAGCACAGTTTACAAGAGGCCAAAGAAGAGTGTATAAAATTGAAGGTGGACTTACTTGAACAGAGTAAACAAGGAAAAAGAGCTGAGCGACAAAGGAATGAAGCCCTCTATAATGCAGAAGAGCTGAGTAAGGCCTTCCAGCTGTACAAAGAAAAAGTGGCTGAAAAACTGGAAAAGGTTCAAGATGAAGAAGAAATATTAGAGAGAAATCTTAGTAACTGTGAAAAGGAAAATAAAAGGCTTCAAGAAAAGTGTAATCTGTATAAAAGTGAACTTGAAATTTTGAAAGAGAAATTCAGGGAGTTAAAAGAAGAACATTACAGTGGAAAAGAAAAATTAATGATTATGGCAATGAAAAACTCAGAAGTCATGTCACAGTTAACGGAATCTAGACAATGTATTCTGAAGCTAGAGAGGGAGTTAGAGGACAAAGATGAAATAGTACGAGAAAAGTTTTCCTTATTAAATGAAAATCGAGAATTGAAGGTTCGTGTTGCAACACAGAATGAACGACTAGAGTTGTGTCAGCAGGACATTGATAATTCAAGGGTGGAACTGAAGAGTTTAGAAAAACTGATAACCCAGATACCATTAAAAAGAGAAATAGTTGGCTTTAGGTCATCTCTTTGTAAGCACCAGAGGAGTAGTGTTTCTGACAAGGAGGACAAATGCATTGGCTGCTGTGAGGCAAATAAACTCATGATTTCTGAATTGAGGATTAAGCTTGCAATAAGAGAGGCTGAAATTCAAAAGCTTCATGCAAATCTGACTGTGAACCAGCTCTCTCAAAATGTTGCTAATGATAGTCAAGAATGTGGTAAAGTAAACACGTTAGAAACAGAACCGGTAAAATTAGGAGGTAGTCAAGTCGAAAGTATAAAGGATGGAGATCAGCAGACTGTGAACAAGCAGTATGAAAGAGAGAAGCAGCGACTTGCTACCGGGATAGAAGAACTGCGTGCTAAGCTGACACAGATAGAAGCTGAGAACTCTGACTTGAAGGTTAACATGGCACACAGAACTAGTCAGTTTCAGCTAATTCAAGAGGAACTACTAGAGAAAGCTTCAAATGCTAGCAAACTAGAAAATGAAATGACAAAGAAGTGTTCTCAACTTTTAATTCTAGAGAAACAGCTAGAAGAAAAAATTATTGCATATTCTTCTATTGCTGCAAAAAATGCAGAACTTGAACAAGAACTTATGGAGAAAAATGAAAAAATAAGAAGCCTAGAATCAAATATCAACACAGAACATGAGAAAATTTGTTTTGCTTTTGAAAAAGCAAAGAAAATTCATCTTGAACAGCATAAGGAAATGGAAAAACAGATTGAGCAACTCGAAACTCAACTGGAGAAAAGAGACCAACAGTTTAAAGAACAAGAAAAGACTATGTCCATTTTGCAGCAAGATATACTGTGTAAACAGCATCACCTTGAATCACTAGATAGACTCTTGACAGAAAGTAAAGTGGAAATGGAAAAAGAAAATATGAAGAAAGATGAAGCTTTAAAAGCATTGCAGATTCATGTATCTGAAGAAACAATCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCTTGACAGAAAGTAAAGTGGA
57.76
AATGTTGGCTGCCTGCTCTT
60.54
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTCTTGACAGAAAGTAAAGTGG
56.42
AATGTTGGCTGCCTGCTCTT
60.54
142
PCR template sequence:
ACTCTTGACAGAAAGTAAAGTGGAAATGGAAAAAGAAAATATGAAGAAAGATGAAGCTTTAAAAGCATTGCAGATTCATGTATCTGAAGAAACAATCAAGATTGCTATGCTTGAGTCTGCACAAGAGCAGGCAGCCAACATTCCAATCTTAGAAGAACAGATTATAAATTTGGAAGCAGAAGTTTCAGCTCAAGATAAAG
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-103-3p(1), mmu-miR-26a-5p(1), mmu-miR-335-5p(1), mmu-miR-25-3p(1), mmu-miR-26b-5p(1), mmu-miR-107-3p(1), mmu-miR-335-3p(1), mmu-miR-670-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAACAATCAAGATTGCTATGCTTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCDC18_1704_ORF_1
1.0776
0.096560648
1
3402
ORF sequence:
ATGCTTGAGTCTGCACAAGAGCAGGCAGCCAACATTCCAATCTTAGAAGAACAGATTATAAATTTGGAAGCAGAAGTTTCAGCTCAAGATAAAGTTTTGAGAGAAGCAGAAGATAAATTAGAGCAGAGTCAGAAAATGGTGATTGAAAAGGAGCACAGTTTACAAGAGGCCAAAGAAGAGTGTATAAAATTGAAGGTGGACTTACTTGAACAGAGTAAACAAGGAAAAAGAGCTGAGCGACAAAGGAATGAAGCCCTCTATAATGCAGAAGAGCTGAGTAAGGCCTTCCAGCTGTACAAAGAAAAAGTGGCTGAAAAACTGGAAAAGGTTCAAGATGAAGAAGAAATATTAGAGAGAAATCTTAGTAACTGTGAAAAGGAAAATAAAAGGCTTCAAGAAAAGTGTAATCTGTATAAAAGTGAACTTGAAATTTTGAAAGAGAAATTCAGGGAGTTAAAAGAAGAACATTACAGTGGAAAAGAAAAATTAATGATTATGGCAATGAAAAACTCAGAAGTCATGTCACAGTTAACGGAATCTAGACAATGTATTCTGAAGCTAGAGAGGGAGTTAGAGGACAAAGATGAAATAGTACGAGAAAAGTTTTCCTTATTAAATGAAAATCGAGAATTGAAGGTTCGTGTTGCAACACAGAATGAACGACTAGAGTTGTGTCAGCAGGACATTGATAATTCAAGGGTGGAACTGAAGAGTTTAGAAAAACTGATAACCCAGATACCATTAAAAAGAGAAATAGTTGGCTTTAGGTCATCTCTTTGTAAGCACCAGAGGAGTAGTGTTTCTGACAAGGAGGACAAATGCATTGGCTGCTGTGAGGCAAATAAACTCATGATTTCTGAATTGAGGATTAAGCTTGCAATAAGAGAGGCTGAAATTCAAAAGCTTCATGCAAATCTGACTGTGAACCAGCTCTCTCAAAATGTTGCTAATGATAGTCAAGAATGTGGTAAAGTAAACACGTTAGAAACAGAACCGGTAAAATTAGGAGGTAGTCAAGTCGAAAGTATAAAGGATGGAGATCAGCAGACTGTGAACAAGCAGTATGAAAGAGAGAAGCAGCGACTTGCTACCGGGATAGAAGAACTGCGTGCTAAGCTGACACAGATAGAAGCTGAGAACTCTGACTTGAAGGTTAACATGGCACACAGAACTAGTCAGTTTCAGCTAATTCAAGAGGAACTACTAGAGAAAGCTTCAAATGCTAGCAAACTAGAAAATGAAATGACAAAGAAGTGTTCTCAACTTTTAATTCTAGAGAAACAGCTAGAAGAAAAAATTATTGCATATTCTTCTATTGCTGCAAAAAATGCAGAACTTGAACAAGAACTTATGGAGAAAAATGAAAAAATAAGAAGCCTAGAATCAAATATCAACACAGAACATGAGAAAATTTGTTTTGCTTTTGAAAAAGCAAAGAAAATTCATCTTGAACAGCATAAGGAAATGGAAAAACAGATTGAGCAACTCGAAACTCAACTGGAGAAAAGAGACCAACAGTTTAAAGAACAAGAAAAGACTATGTCCATTTTGCAGCAAGATATACTGTGTAAACAGCATCACCTTGAATCACTAGATAGACTCTTGACAGAAAGTAAAGTGGAAATGGAAAAAGAAAATATGAAGAAAGATGAAGCTTTAAAAGCATTGCAGATTCATGTATCTGAAGAAACAATCAAGATTGCTATGCTTGAGTCTGCACAAGAGCAGGCAGCCAACATTCCAATCTTAGAAGAACAGATTATAAATTTGGAAGCAGAAGTTTCAGCTCAAGATAAAGTTTTGAGAGAAGCAGAAGATAAATTAGAGCAGAGTCAGAAAATGGTGATTGAAAAGGAGCACAGTTTACAAGAGGCCAAAGAAGAGTGTATAAAATTGAAGGTGGACTTACTTGAACAGAGTAAACAAGGAAAAAGAGCTGAGCGACAAAGGAATGAAGCCCTCTATAATGCAGAAGAGCTGAGTAAGGCCTTCCAGCTGTACAAAGAAAAAGTGGCTGAAAAACTGGAAAAGGTTCAAGATGAAGAAGAAATATTAGAGAGAAATCTTAGTAACTGTGAAAAGGAAAATAAAAGGCTTCAAGAAAAGTGTAATCTGTATAAAAGTGAACTTGAAATTTTGAAAGAGAAATTCAGGGAGTTAAAAGAAGAACATTACAGTGGAAAAGAAAAATTAATGATTATGGCAATGAAAAACTCAGAAGTCATGTCACAGTTAACGGAATCTAGACAATGTATTCTGAAGCTAGAGAGGGAGTTAGAGGACAAAGATGAAATAGTACGAGAAAAGTTTTCCTTATTAAATGAAAATCGAGAATTGAAGGTTCGTGTTGCAACACAGAATGAACGACTAGAGTTGTGTCAGCAGGACATTGATAATTCAAGGGTGGAACTGAAGAGTTTAGAAAAACTGATAACCCAGATACCATTAAAAAGAGAAATAGTTGGCTTTAGGTCATCTCTTTGTAAGCACCAGAGGAGTAGTGTTTCTGACAAGGAGGACAAATGCATTGGCTGCTGTGAGGCAAATAAACTCATGATTTCTGAATTGAGGATTAAGCTTGCAATAAGAGAGGCTGAAATTCAAAAGCTTCATGCAAATCTGACTGTGAACCAGCTCTCTCAAAATGTTGCTAATGATAGTCAAGAATGTGGTAAAGTAAACACGTTAGAAACAGAACCGGTAAAATTAGGAGGTAGTCAAGTCGAAAGTATAAAGGATGGAGATCAGCAGACTGTGAACAAGCAGTATGAAAGAGAGAAGCAGCGACTTGCTACCGGGATAGAAGAACTGCGTGCTAAGCTGACACAGATAGAAGCTGAGAACTCTGACTTGAAGGTTAACATGGCACACAGAACTAGTCAGTTTCAGCTAATTCAAGAGGAACTACTAGAGAAAGCTTCAAATGCTAGCAAACTAGAAAATGAAATGACAAAGAAGTGTTCTCAACTTTTAATTCTAGAGAAACAGCTAGAAGAAAAAATTATTGCATATTCTTCTATTGCTGCAAAAAATGCAGAACTTGAACAAGAACTTATGGAGAAAAATGAAAAAATAAGAAGCCTAGAATCAAATATCAACACAGAACATGAGAAAATTTGTTTTGCTTTTGAAAAAGCAAAGAAAATTCATCTTGAACAGCATAAGGAAATGGAAAAACAGATTGAGCAACTCGAAACTCAACTGGAGAAAAGAGACCAACAGTTTAAAGAACAAGAAAAGACTATGTCCATTTTGCAGCAAGATATACTGTGTAAACAGCATCACCTTGAATCACTAGATAGACTCTTGACAGAAAGTAAAGTGGAAATGGAAAAAGAAAATATGAAGAAAGATGAAGCTTTAAAAGCATTGCAGATTCATGTATCTGAAGAAACAATCAAG
Peptide sequence:
MLESAQEQAANIPILEEQIINLEAEVSAQDKVLREAEDKLEQSQKMVIEKEHSLQEAKEECIKLKVDLLEQSKQGKRAERQRNEALYNAEELSKAFQLYKEKVAEKLEKVQDEEEILERNLSNCEKENKRLQEKCNLYKSELEILKEKFRELKEEHYSGKEKLMIMAMKNSEVMSQLTESRQCILKLERELEDKDEIVREKFSLLNENRELKVRVATQNERLELCQQDIDNSRVELKSLEKLITQIPLKREIVGFRSSLCKHQRSSVSDKEDKCIGCCEANKLMISELRIKLAIREAEIQKLHANLTVNQLSQNVANDSQECGKVNTLETEPVKLGGSQVESIKDGDQQTVNKQYEREKQRLATGIEELRAKLTQIEAENSDLKVNMAHRTSQFQLIQEELLEKASNASKLENEMTKKCSQLLILEKQLEEKIIAYSSIAAKNAELEQELMEKNEKIRSLESNINTEHEKICFAFEKAKKIHLEQHKEMEKQIEQLETQLEKRDQQFKEQEKTMSILQQDILCKQHHLESLDRLLTESKVEMEKENMKKDEALKALQIHVSEETIKIAMLESAQEQAANIPILEEQIINLEAEVSAQDKVLREAEDKLEQSQKMVIEKEHSLQEAKEECIKLKVDLLEQSKQGKRAERQRNEALYNAEELSKAFQLYKEKVAEKLEKVQDEEEILERNLSNCEKENKRLQEKCNLYKSELEILKEKFRELKEEHYSGKEKLMIMAMKNSEVMSQLTESRQCILKLERELEDKDEIVREKFSLLNENRELKVRVATQNERLELCQQDIDNSRVELKSLEKLITQIPLKREIVGFRSSLCKHQRSSVSDKEDKCIGCCEANKLMISELRIKLAIREAEIQKLHANLTVNQLSQNVANDSQECGKVNTLETEPVKLGGSQVESIKDGDQQTVNKQYEREKQRLATGIEELRAKLTQIEAENSDLKVNMAHRTSQFQLIQEELLEKASNASKLENEMTKKCSQLLILEKQLEEKIIAYSSIAAKNAELEQELMEKNEKIRSLESNINTEHEKICFAFEKAKKIHLEQHKEMEKQIEQLETQLEKRDQQFKEQEKTMSILQQDILCKQHHLESLDRLLTESKVEMEKENMKKDEALKALQIHVSEETIK
IRESfinder result
IRESfinder score
0.62572447
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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