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mmu_ciCep43_1924
Basic information of circular RNA
PanCircBase ID:
mmu_ciCep43_1924
mm39_Chr. Position ID:
chr17|8401286|8403210|+
Gene name:
Cep43
Transcript:
ENSMUST00000097419.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
1924
Exon/intron sizes in nt:
1924
Flanking exon/introns:
chr17:8401286-8403232
Splice length:
1924
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTAGACTCCTCTTCAGATTACCTGATCATGATTTCAAAACAAAGTTTCTAAATGCTTTCACTTTATATTTTAAAACGAATAACCTGCTAATTACAATTATTGAACCCACAAATCTGATGTTGTGTCAGTAATGCCTAGTATGTCATAAAATAATTCAAGGAATACTGAAGACACCAGGCATAAGCCATTTTCACGAGGTGAGCCTGCATCAGGACCCTACCATGTGACAGGAGCTGTTTCGAGTTTCAGTTCATTTCAGGGTGCAACAGTGGGTTCTGACTCTTGCCTCGGAGTTCACCCTCAGAGGCAGTCAAGTAGTTAGTAAGACTCATCTTCAGTGGAGATGCTGTGTGGTGGGCAGCAGTGGTGCAGAGGCCTTGTCAGTTTCAGTAGCTGACCAGAGAAGGCTGTAGTTCTCATGGAGTACACCTGAGCCAACAGCTCAGGGAGTGAGCTAGCCATGTGGAATCAGGTTTGCACCACTCCCAAGAGAGGAACTAGCAAATAAGAAGGGTCTCATCAGCCCCTCAGGACATCAGGAAGGGCAGTGTGGTCACAGGAGAGGGTTGTGTGAGTTGGATGTGGAGATGGAGGTCAGTCACAAGAGTGTGACTTCTCGCTAAGATTGGAAGCACTGAAGTCTTGACCCAGCCCACACAGATCCTCGCTGCTGAGCCAAGGCCATGCAGTTTCCAGAGAGCACACTGTCGAGCTGTCAGGACTCTTCAGGAGCAAAATGATGGAGTGATGGGAAGTAGGTGCTTTAGGGACGTTTTAAGGCTAATTGCAAAAGGATTTGCAGATGAGTACAAGAGAACCAGGTGATAACCAGGGTAGCTCTCCAGGGTCTACACTTGAATACTTGGAAGGTTAAAACCCATAAACAGAGGTGGAAAAAAAAATGGGAAAAGCTGGGTCAGATGGCACAGACGTGTGGCCTGAGAGTCCCGAGTGTGATGTGTTAGGATCTAGATGTTGGTGGGCAGGATGTACACTGGAGAGAGCGAGGGAGTCATCAGTATATAGGGAATACTGAAGCCAGTACATAGGGAGATCACAAAAGTAGGCTGAGCACACTTGAGGTCAGTGAGGAGAGCAGGCAGCATAAAGGAGACTAAGGAACCATGGCAGGAAAGGCCGGAGACAGCAGCTGCAGTGGCATCTGACAATCACCCACTGGGGTTAGCCATATGGAGGTTAGAGGTGACTTTGGCTGACAGTTTTATTGGACTGGAAATAGGGCAGATAAAAGGGTTATAGTTGACCAGAAAGGAATGTTGGGGAAGGATTAAAATAACAAGTCGTAAAGGGTACAGAGGATAGAAGTATGAGAACTTAGGCAGAATGTGGGTCTAGATGTGTGCATACATACGTACGTGCATGTTTGGGTGTGCATGCTAGTGTAAGAAAATGATACCCAGGGCTTAGTATAAGGGAGCAAAAGAGTTCCTGGAGTGCTGTTTGACTCCAGGGAAAGTTGCCAGCAGGATGAAGAGGGTGTGCAGTGTGGGCCTGGATGGCAGTGCCTGGGGAGTTAGGAGTGAGCTGAGGGGAAATCTTGGACTAACACCCGCAAGGTCAGAGGCTCTGCCCTTCCTGACTGTGTGCATTTGAGAGGTAGAGCTTGTCTGTTGGCTGTGTACTGTCTTGTTTCTGGGAAGTGGAGGAGGGCTTCTGAAGTGCAGACTTACGAGAGAAAGCAGACAGCTGTAAACTCAGGGAGCTGGAGCGTCACTCACAAACTTAATTCATGGATCATGGATCCGTAACCACAGCTTGCTCTGCAGGCTTGCTTTATGCTTTGCAGCCTGTAAATTCTTTTTATTTCCAGCCAGTGTACACAAGTAAAACTTCTTTACATTGCTTTTTTATGTTTACAGACTAAAAGACTCTAGTGATAAGGTCTGAAATTGTTATTTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGCCAGTGTACACAAGT
58.87
ACTTTGTTTTGAAATCATGATCAGGT
58.27
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAGCCAGTGTACACAAGT
58.87
TTGTTTTGAAATCATGATCAGGT
55.04
140
PCR template sequence:
TTTATTTCCAGCCAGTGTACACAAGTAAAACTTCTTTACATTGCTTTTTTATGTTTACAGACTAAAAGACTCTAGTGATAAGGTCTGAAATTGTTATTTAGTGAGTAGACTCCTCTTCAGATTACCTGATCATGATTTCAAAACAAAGTTTCTAAATGCTTTCACTTTATATTTTAAAACGAATAACCTGCTAATTACAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
21
Interacting miRNAs (#binding sites)
mmu-miR-127-5p(2), mmu-miR-324-3p(2), mmu-miR-3087-3p(2), mmu-miR-670-5p(2), mmu-miR-9-5p(1), mmu-miR-1a-3p(1), mmu-miR-199a-5p(1), mmu-miR-135a-5p(1), mmu-miR-19b-3p(1), mmu-miR-101a-3p(1), mmu-miR-146a-5p(1), mmu-miR-19a-3p(1), mmu-miR-24-3p(1), mmu-miR-503-5p(1), mmu-miR-433-3p(1), mmu-miR-125a-5p(1), mmu-miR-676-3p(1), mmu-miR-224-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATTGTTATTTAGTGAGTAGACTCC
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
0.614322907
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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