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mmu_ciCdc27_1284
Basic information of circular RNA
PanCircBase ID:
mmu_ciCdc27_1284
mm39_Chr. Position ID:
chr11|104417804|104419088|-
Gene name:
Cdc27
Transcript:
ENSMUST00000093923.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
1284
Exon/intron sizes in nt:
1284
Flanking exon/introns:
chr11:104417803-104419088
Splice length:
1284
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCACACAAGATATTGTAAAATGTATTCTAATATATAAATGATCTTTAGTGAATCCTATTATGAATAATATAAGTTAATTTAAACAGCATCTTCTCTAATCAGTATGACAGAGTGGCATTCTGTTTTCAGAAAAGGAAGTAAAAAAAGCCACAATACATCTATAAAATTTTTGAGTTAAAATTAAAAGAGTGAGAGTGTAGCTCAGTTGGTTGAATATTCCTATAGTGTGCACAAGGTTCAGGCTTGATTCTCAGCACTCTGTAAACTGGGCAAGGTTTCAAATGCATGTAATTTTAGTACTTGGGAAGTGGAGGCAGGAAGGCCTGAAGTTCAAGTTCATCCTCAACTGTGAGTTAGAAAGTCAAAGCTTATGATATGTCATGATCTTTCTCAAAATAAAATTAAGCAGAGGAAAAATATTAAAGCTTTTAAATATGCACCAGTTAGTATATGTATTAAAAGATACAATCTTGAGCTGGGTGTGGTGGCATACGCCTTAATCCCAGGACTCGGGAGGCAGAGGCAGGCAGATTTTGAGTTCCAAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGATAGCCAGGGCTATACAGAGAAATCCCTGTCTCGAAAAACCAAAATAAAGGGGGGGGGGTACAATCTTTATGGCTGTGCATCTACAGATAGCAATCCCTCCACTTGTACGTTTGGTTGGTTATGGCAGCATTTCCAGTTCTCTTTTCTAAAACATGAAGGAGGAGTTGACACTTATCATTGGAAAATATGTTGTCAAAATTATTAAAAGTATATTATATGTGTATACAATAACACATCAAACATATCAAAACTATCAAACAAAACTCATGAAAGAATAGACTATAAATGGAGTCTCAAGGCCAGAAAGCTATTAAAATAGCATGACCAGGAGATTGGTTAGGGTATCTGCAGAGACCAATGGGTAACTGTATCAATAATTATTAAGTAATTACCAATATTCTCTAGGACATTGTCTAAATTGTTCCAAAAATTGGAGTTCATGTCATCATTTGTATCCTAGCTTTTAAACAGGCAGTCACAAATCAGTAGCCACTGTTCTCTTCAGGTCCTTGTCCTGTCTCTGTGGTTCTGGGGGGGTGGAGCCCTCTACATTCACAGCTCATGTTAAATCTGCCCCTTAGGTCCTCTCTGCCCTGGAGACTGACTTGCCATTCTCTTCCTTTTAGACCTTCTAATTTAAGTATACTGCTGCTTTGTATATGCCTTGATGACTTTTTGACACCTTGATTTCAACCTCTTCTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
NA
NA
NA
NA
NA
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
NA
NA
NA
NA
NA
PCR template sequence:
ACTTGCCATTCTCTTCCTTTTAGACCTTCTAATTTAAGTATACTGCTGCTTTGTATATGCCTTGATGACTTTTTGACACCTTGATTTCAACCTCTTCTCAGTAAGTCACACAAGATATTGTAAAATGTATTCTAATATATAAATGATCTTTAGTGAATCCTATTATGAATAATATAAGTTAATTTAAACAGCATCTTCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-541-5p(2), mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-146a-5p(1), mmu-miR-185-5p(1), mmu-miR-136-5p(1), mmu-miR-153-3p(1), mmu-miR-466d-3p(1), mmu-miR-325-3p(1), mmu-miR-190b-5p(1), mmu-miR-5101(1), mmu-miR-3087-3p(1), mmu-miR-452-3p(1), mmu-miR-3470b(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAACCTCTTCTCAGTAAGTCACACAA
siRNA sets
GTGACTTACTGAGAAGAGG, TTGTGTGACTTACTGAGAA, TGTGACTTACTGAGAAGAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.818960248
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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