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mmu_ciCep85_1188
Basic information of circular RNA
PanCircBase ID:
mmu_ciCep85_1188
mm39_Chr. Position ID:
chr4|133864957|133866145|-
Gene name:
Cep85
Transcript:
ENSMUST00000040271.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
10
Exon/intron offsets:
0
Genomic length:
1188
Exon/intron sizes in nt:
1188
Flanking exon/introns:
chr4:133864932-133866145
Splice length:
1188
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACTAGGCTTTCTGAGTCTGGCCAGGGCAGGCTGGGAGGGAAGAAGAGAATGCATTCTGGGAAGGAACCAGGAGTTCCTGGTCTTAAGCTACCCAGGGTCTGCTCAAAAGAGCTTTTCTCTCTTCGGAGAAGTCAGCCTTGTGTAGTAAGTTTACATTTTAGATATTCAGTCTTATCACAGGCAGATTGCTTATCAAGAATATACACAAAGGTTAGGGGCAACATGCCCATCATGTGAACCAGAATGGTGTGCACTGAATCCCAGGAGCACTGTGGCTGTGGTTCAGGGCCTGGAGAAACTGCTAATGTTCATCAAAACTTCAGCACTGGGGAGGTGGCTCAGTTTCTCAACTCAGCGAATAATAGAGATCCAGTAACCTGCTGTGGGACAGGTTAGCAAACAACATCCAGAAATGGTTCAGAAACTATGTGAACTCTTGAGGCACAGAAAGCTGACACTATTTAGAGTCTCTCCTGGAATAGTCACTAAAAAATAGTGACCAAAGTTCTAACCCCATACGCACTGTAGATAGCCCAGGATAGGGAGACCCACTAAGCTGACTTTGTGCTTTTGAAAAACATGTGTACTGAGAGTTCCTTCCACTGACTCCACCTTCAATAGGTGAAGGTCTAGTGCATTCCTCTATGTCTTAGTCAGGGATTCTATTCCTGCACAAACATCATGACCAAGAAACAAGGTGGGGAGGAAAGGGTTTATTCAGCTTACACTTCCACATTGCTGTTCATCACTTAAGGAAGTCAGGACTGGAACTCAAGCAGGTCAGGAAGCAGGAGCTGATGCAGAGACCATGGAGGGATGTTTCTTACTGGCTTGCTTCCCCTGGCTTGCTCAGCTTGCTTGCTTATAGAACCAAAGGCTACCAGCCCAGGGATGGCACCACCCACAAGGGTCCCTCCCTGCTTAATCATTAATTGAGAAAATGCCTGACAGCTGGATCTCATGGAGGCATTTCCCCAATTGAAGCTCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGCTAAAACAGCCAGTACACTCTGTAACCTCTATTATGGCTAGAGCACAGTCAGGGAAGATCAGGAGTCTGAAGTAGATTTCTGTAGGTTGTGCCAATCAATCCTCATCCTGGTCTCATAATGGGCTATTGATGGTCTTGGGTCACCACATCAGCACTATGCTTGTAGC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGATGGTCTTGGGTCACCA
58.86
CCCTGGGTAGCTTAAGACCAG
59.51
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGGCTATTGATGGTCTTGGG
59.78
CCCTGGGTAGCTTAAGACCAG
59.51
148
PCR template sequence:
TGAAGTAGATTTCTGTAGGTTGTGCCAATCAATCCTCATCCTGGTCTCATAATGGGCTATTGATGGTCTTGGGTCACCACATCAGCACTATGCTTGTAGCGTGACTAGGCTTTCTGAGTCTGGCCAGGGCAGGCTGGGAGGGAAGAAGAGAATGCATTCTGGGAAGGAACCAGGAGTTCCTGGTCTTAAGCTACCCAGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-138-5p(1), mmu-miR-139-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-96-5p(1), mmu-miR-5101(1), mmu-miR-188-3p(1), mmu-miR-670-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTATGCTTGTAGCGTGACTAGGCTTT
siRNA sets
NA
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
0.688022506
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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