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mmu_circCfap69_672
Basic information of circular RNA
PanCircBase ID:
mmu_circCfap69_672
mm39_Chr. Position ID:
chr5|5654273|5669215|-
Gene name:
Cfap69
Transcript:
ENSMUST00000054865.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
14,13,12,11,10
Exon/intron offsets:
0,9412,12895,14674,14893
Genomic length:
14942
Exon/intron sizes in nt:
119,165,217,122,49
Flanking exon/introns:
chr5:5646039-5654273|chr5:5669215-5671919
Splice length:
672
Other database IDs:
circAtlas: mmu-A330021E22Rik_0011
Human Ortholog IDs:
Mature spliced Sequence:
GAATGTGGCTTTACCAGGGATTTGATACTATTTGCAACTTTTAATGAAGTTAAAAGTCAAAACCCCTTGGTAAAAAGTCTTAAGCTTTTTAATTGCTATGAAGATTTTGAGCTGAAGAAATTGTTATTCAATATAATTGTGATCTTATGTAAAGATTTAGCTACTGTACAGCTATTAATCGATGGCAAAGTTATTTTGGCTTTGTTTACCTATGTGAAAAAGCCTGAGAGACTCAAGATCATGGAGTGGTCTGCAGCACAGTATGAAGAACTACAACTGCATGCGATTGCCACCTTGTCCTCTGTGGCTCCTTTGTTAATAGAAGAGTATATGTCATGCCACGGCAATTCTCGGATCCTTGCATTTCTGGAGTGGTGTGGGCATGAGGATTCCTACTTCATTCATGGTAACAGTTTCCATGGTACAGGCGGCCGTGGAAACAAGTTCGCCCAGATGCGTTACACTCTACGGCTCCTCAGAGCCATGGTTTATCTGGAAGATGAGACTGTGAACAAGGACCTTTGTGAGAGAGGGGTTATTCATCAACTGATAGAAATTTTTAAAACTATGATGAGCAGACCTGCTGAGAAGGAAGAGGCCATTGCCTTAGAAATCCAGTCTGACACATTACTTATTCTGTCAGGTCTTTGTGAAAATTATATCCAAAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCTGAGAAGGAAGAGGCC
60.11
AGCTTAAGACTTTTTACCAAGGGG
58.92
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGCTGAGAAGGAAGAGGC
60.11
AGCTTAAGACTTTTTACCAAGGGG
58.92
179
PCR template sequence:
GAGCAGACCTGCTGAGAAGGAAGAGGCCATTGCCTTAGAAATCCAGTCTGACACATTACTTATTCTGTCAGGTCTTTGTGAAAATTATATCCAAAGGAAGGAATGTGGCTTTACCAGGGATTTGATACTATTTGCAACTTTTAATGAAGTTAAAAGTCAAAACCCCTTGGTAAAAAGTCTTAAGCTTTTTAATTGCTATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-452-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TATCCAAAGGAAGGAATGTGGCTTTA
siRNA sets
TAAAGCCACATTCCTTCCT, AAAGCCACATTCCTTCCTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCFAP69_672_ORF_1
1.0087
0.085883051
0.992748485
1104
ORF sequence:
ATGGAGTGGTCTGCAGCACAGTATGAAGAACTACAACTGCATGCGATTGCCACCTTGTCCTCTGTGGCTCCTTTGTTAATAGAAGAGTATATGTCATGCCACGGCAATTCTCGGATCCTTGCATTTCTGGAGTGGTGTGGGCATGAGGATTCCTACTTCATTCATGGTAACAGTTTCCATGGTACAGGCGGCCGTGGAAACAAGTTCGCCCAGATGCGTTACACTCTACGGCTCCTCAGAGCCATGGTTTATCTGGAAGATGAGACTGTGAACAAGGACCTTTGTGAGAGAGGGGTTATTCATCAACTGATAGAAATTTTTAAAACTATGATGAGCAGACCTGCTGAGAAGGAAGAGGCCATTGCCTTAGAAATCCAGTCTGACACATTACTTATTCTGTCAGGTCTTTGTGAAAATTATATCCAAAGGAAGGAATGTGGCTTTACCAGGGATTTGATACTATTTGCAACTTTTAATGAAGTTAAAAGTCAAAACCCCTTGGTAAAAAGTCTTAAGCTTTTTAATTGCTATGAAGATTTTGAGCTGAAGAAATTGTTATTCAATATAATTGTGATCTTATGTAAAGATTTAGCTACTGTACAGCTATTAATCGATGGCAAAGTTATTTTGGCTTTGTTTACCTATGTGAAAAAGCCTGAGAGACTCAAGATCATGGAGTGGTCTGCAGCACAGTATGAAGAACTACAACTGCATGCGATTGCCACCTTGTCCTCTGTGGCTCCTTTGTTAATAGAAGAGTATATGTCATGCCACGGCAATTCTCGGATCCTTGCATTTCTGGAGTGGTGTGGGCATGAGGATTCCTACTTCATTCATGGTAACAGTTTCCATGGTACAGGCGGCCGTGGAAACAAGTTCGCCCAGATGCGTTACACTCTACGGCTCCTCAGAGCCATGGTTTATCTGGAAGATGAGACTGTGAACAAGGACCTTTGTGAGAGAGGGGTTATTCATCAACTGATAGAAATTTTTAAAACTATGATGAGCAGACCTGCTGAGAAGGAAGAGGCCATTGCCTTAGAAATCCAGTCTGACACATTACTTATTCTGTCAGGTCTTTGTGAAAATTATATCCAAAGGAAG
Peptide sequence:
MEWSAAQYEELQLHAIATLSSVAPLLIEEYMSCHGNSRILAFLEWCGHEDSYFIHGNSFHGTGGRGNKFAQMRYTLRLLRAMVYLEDETVNKDLCERGVIHQLIEIFKTMMSRPAEKEEAIALEIQSDTLLILSGLCENYIQRKECGFTRDLILFATFNEVKSQNPLVKSLKLFNCYEDFELKKLLFNIIVILCKDLATVQLLIDGKVILALFTYVKKPERLKIMEWSAAQYEELQLHAIATLSSVAPLLIEEYMSCHGNSRILAFLEWCGHEDSYFIHGNSFHGTGGRGNKFAQMRYTLRLLRAMVYLEDETVNKDLCERGVIHQLIEIFKTMMSRPAEKEEAIALEIQSDTLLILSGLCENYIQRK
IRESfinder result
IRESfinder score
0.72730838
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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