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mmu_ciCfap36_925
Basic information of circular RNA
PanCircBase ID:
mmu_ciCfap36_925
mm39_Chr. Position ID:
chr11|29194160|29195085|-
Gene name:
Cfap36
Transcript:
ENSMUST00000020754.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
925
Exon/intron sizes in nt:
925
Flanking exon/introns:
chr11:29194160-29195085
Splice length:
925
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTATTTCCCCCTGATTTTTGTTGTTTGAGATGGGGCTTCATTATGCAGTCATGACTGGCCTGGAACTCACTGTGTAGACCAGGCTGGCCTAGATCACACAGAGATTTATGTGTCTCTACCTCCCCAGTGCTGGGACTAAAGGTGTGTGCCAACACACTGGCTCTTTTCATTGATTTTAAGATTGTGAAAAAATTGCTTTTTTAAATTAAAATTCTTTGAAATTGTTTTTAAGATTTATTTATTTTTGTGTATGGGTGTTTTTTTTTTTGCATGTATGTGCACTATGTATGTACCTGTTCTCACAGTAGTCAAAAGAGGGGCTTGGGTTCCTGGTAACTAAAGTTATGGATGGTTGTGAGCCACCGTGTGAGTGCTGAGAATCGAACCTGGGTCTTCTGGACCTGCACAGGTGCTCTTACTTGCCACACCATCCCTGCAGCCTTCATTATAGGAGTTCTTCCTCCTACAACAGTACTAACAGTTTTCTCAACCTTGTCATTTCCATGAGCATCTTTTTAAATGATTTTCTGTCTCTTCTGTTTTAGACGTAAGTAATGATTTATTGTAGCTATGCGGATGTTTCGCTTTTACATTTTTATTAAGCTGGGGCCTCTAGGCCAGTGCTGTGCTCCCTGATATATAGTTGTCTTGGGAGTTTTAAGAGCCTCTGCATATTTTAAAAAGAAGACAATGGGTAGAGGAGTTGTACCATGTTCACCTTCATAATTCTGGCAGAGGAAATTAAACTTTATGTGATTTTTTTTCAAGAAAAAAAAACCTTCTCCTTGTTAATTTATTGGTGAAAGACATTATTAGTTCTGTGTCTTGTATAATGGTAATTCCAAAGAGCATTCTAAACAGGCAGAATGACAATTAGAATTTTCCTATGTACATTATAAAGGTTAATTCATTTCCTTTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAAAGAGCATTCTAAACAGGCA
59.49
CCAGCCTGGTCTACACAGTG
60.04
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAAAGAGCATTCTAAACAGGC
59.24
CCAGCCTGGTCTACACAGTG
60.04
172
PCR template sequence:
TGTCTTGTATAATGGTAATTCCAAAGAGCATTCTAAACAGGCAGAATGACAATTAGAATTTTCCTATGTACATTATAAAGGTTAATTCATTTCCTTTTAGGTGAGTATTTCCCCCTGATTTTTGTTGTTTGAGATGGGGCTTCATTATGCAGTCATGACTGGCCTGGAACTCACTGTGTAGACCAGGCTGGCCTAGATCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-153-3p(2), mmu-let-7a-5p(1), mmu-miR-199a-5p(1), mmu-let-7e-5p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-217-5p(1), mmu-miR-381-3p(1), mmu-let-7d-5p(1), mmu-miR-96-5p(1), mmu-miR-466d-3p(1), mmu-miR-342-3p(1), mmu-miR-3065-5p(1), mmu-miR-466b-3p(1), mmu-miR-193b-3p(1), mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATTTCCTTTTAGGTGAGTATTTCCC
siRNA sets
GAAATACTCACCTAAAAGG, AATACTCACCTAAAAGGAA, AAATACTCACCTAAAAGGA
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
0.92645831
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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