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mmu_ciCep57_1415
Basic information of circular RNA
PanCircBase ID:
mmu_ciCep57_1415
mm39_Chr. Position ID:
chr9|13731407|13732822|-
Gene name:
Cep57
Transcript:
ENSMUST00000142494.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1415
Exon/intron sizes in nt:
1415
Flanking exon/introns:
chr9:13730334-13732822
Splice length:
1415
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATCAACTGTAACAAAGTAAATGCTATTTGTTCACCCATTAGTTGAAACTTCTTACCTATGACATGTTATTTTTATATTAGAACAGTATAAGTTTCCCCTTTACTTTTGAGTGCTTTTCATGTAGACTGCTGAACATTATTCACCAAATCATGGAACCTAAAGTACTTTGAGACACTTATCACTAGTCTGTCATCTTCAGAATCAGTCAGAAACCAAAGTCTCAGGTAGGGGCCAGAGAGATGGCTCAGGAGTTAAGAGCATTAGCTGCTCTTCAAGAAGACCTGAGTTCAATTCCCAGCACTCATGGCAATTCACAACTGTTTGTTGCTCTAGTCCTAAGGAATCTGACACTAGTTTTATGCACAGGGTACACAGAAAAATATATACAGGCAAAACATCCATACCCATTAAGTGAATAAATACCTTTGTAAAAAGTAAGGGTCATCTTGTAGAAAGCACTACTTGGACTCTGCGTTCTATTTCTCTAAAGAGGACAGACATTGAGTGGATGTATGTGTTCCTGGAGAGTGTGAGAGGAAGTGGTAAATAGGACCTAAAAAAGGTGTCAAAGAATAAACGAAACCAATACTTTATTTATTTTTAACCTAGGACCTTTATGGTTAGGGTTAGAGTTTCTGTTCCCATGCTTTGTGGCAGAGGCAGATAGCTAGATCTCTGGAGCTCACTGTTCAGCCAACATAGCTTTAATCAGTGAGCCTCAGTTGTGAAAGACGTTGGCTGAACAAACATGTGTTACCTGAAGTCGGTAACCAAGTGCATATTTGACCCCCATGCGCATACTTATATACTTGTGTGTTCATATAACAAAAAGACTGTGATATCTATTGTGTCCTTGTTGCTGGGGATACATGAACAAATAAATGTCTGCTTGCCTCAGAGACGGATCAACAACAGACCAAAGAGATAGTCTTAGTTAGGGTTTCCATTGCTGGAAAGAGACACCATGACCAAGGCAACTCTTGTCCAAAGGACAGCATTTAATTGGGACTAGCTTTCTTTTTTGTGGTTCAGTCCACTATCATGTCAGGAAACATGGCAGTGTCTAGGCAGGTGTGGCACTAGAGGAGCTGTTTATATGCTTGGCCAAGGGAATGGCAATATTAGAAGTTGTGGCTTTGTTCGAGTAGGTGTGTCACTGTGGGTGTGGGCTTTGAGACCCTCATTGGAGCTGCCTAGAAGCCGGTATTCTGCTAGCAACCTTCAGATGAAGATGTAGAACTCTCAGCTCCTCCTGCACCATGCCTGCCTGGATGCTACCATGCTCCTGCCTTGATGATAATGGACTGAACCTCTGAACCTGTAAGCCAGCCCCAATTAAATGTTGTCATTTATAAGACTTGTGTTGGTCATGGTGCTTGTTCACAGCACTAAGACCCTAAGATAAGCTGAGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTAAGCCAGCCCCAATT
60.32
TCAACTAATGGGTGAACAAATAGCA
58.99
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGTAAGCCAGCCCCAATT
60.32
CAACTAATGGGTGAACAAATAGCA
57.73
142
PCR template sequence:
CTGAACCTGTAAGCCAGCCCCAATTAAATGTTGTCATTTATAAGACTTGTGTTGGTCATGGTGCTTGTTCACAGCACTAAGACCCTAAGATAAGCTGAGAGTAATCAACTGTAACAAAGTAAATGCTATTTGTTCACCCATTAGTTGAAACTTCTTACCTATGACATGTTATTTTTATATTAGAACAGTATAAGTTTCCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-495-3p(1), mmu-miR-466d-3p(1), mmu-miR-5101(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATAAGCTGAGAGTAATCAACTGTA
siRNA sets
TACAGTTGATTACTCTCAG, GATTACTCTCAGCTTATCT
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
0.745180008
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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