top of page
mmu_circEsf1_915
Basic information of circular RNA
PanCircBase ID:
mmu_circEsf1_915
mm39_Chr. Position ID:
chr2|139980852|140002416|-
Gene name:
Esf1
Transcript:
ENSMUST00000046030.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,9,8,7,6,5,4
Exon/intron offsets:
0,9820,15861,18122,19547,20761,21450
Genomic length:
21564
Exon/intron sizes in nt:
12,21,62,14,81,15,15,30,00,000
Flanking exon/introns:
chr2:139971207-139980852|chr2:140002416-140006128
Splice length:
915
Other database IDs:
CIRCpedia: MMU_CIRCpedia_228496, circAtlas: mmu-Esf1_0009
Human Ortholog IDs:
Mature spliced Sequence:
ATTACACGTCGACTAGCAGTTTGTAACATGGACTGGGATAGATTAAAGGCGAAAGATTTGCTGGCTCTGTTCAACTCATTTAAGCCCAAAGGAGGAGTTGTATTTTCTGTGAAGATATATCCTTCAGAGTTTGGAAAGGAGAGGATGAAGGAAGAGCAAGTTCAAGGACCAGTAGAGTTACTAAGTATTCCGGAGGATGCCCCTGAAAAGGACTGGGCCTCTAGAGAGAAGCTAAGAGACTACCAGTTCAAACGATTGAAATACTATTATGCAGTAGCGGAGTGTGATTCTCCTGAAACAGCAAGTAAGATTTATGAAGATTGTGATGGCCTGGAATTTGAAAGCAGTTGTTCTTTCATAGACTTAAGATTTATACCAGATGATATTACCTTTGATGATGAGCCCAAGGATGTGGCCTTAGAAGTTGATTTAACGGCATATAAGCCAAAGTATTTCACATCTGCTGCAATGGGAACATCAACGGTGGAGATCACTTGGGATGAGACTGACCATGAAAGAATCACGACGCTTAACAGGAAGTTTAAAAAGGATGAGCTTTTGGACATGGACTTTCAAGCCTACTTGGCTTCCTCTAGCGAGGATGAAGAGGAGGTAGAAGAAGCACCAGAAGGTGAAGAAGGAGTCAACATAGGAGAAGATGGGAAGACAAAGAAAAGTCAGAAGGATGATGAAGAACAAATTGCTAAATACAGACAGCTCTTGCAGGTTATTCAAGAAAAAGAAAAGAAAGGAAAAGAAAATGATATGGAAATGGAAATCAAATGGGTTCCAGGTCTTAAGGAGAGTGCAGAAGAGATGGTCAAAAACAAGTTGGAGGGAAAGGATAAACTGACCCCTTGGGAACAGTTTTTAGAGAAGAAGAAAGAGAAGAAAAGACTGAAAAAGAAACAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGAAAGGATAAACTGACCCCT
59.42
GAGCCAGCAAATCTTTCGCC
60.18
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGAAAGGATAAACTGACCCC
59.42
GAGCCAGCAAATCTTTCGCC
60.18
147
PCR template sequence:
GATGGTCAAAAACAAGTTGGAGGGAAAGGATAAACTGACCCCTTGGGAACAGTTTTTAGAGAAGAAGAAAGAGAAGAAAAGACTGAAAAAGAAACAGAAGATTACACGTCGACTAGCAGTTTGTAACATGGACTGGGATAGATTAAAGGCGAAAGATTTGCTGGCTCTGTTCAACTCATTTAAGCCCAAAGGAGGAGTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-196a-5p(1), mmu-miR-27a-5p(1), mmu-miR-207(1), mmu-miR-335-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGAAACAGAAGATTACACGTCGAC
siRNA sets
GTCGACGTGTAATCTTCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCESF1_915_ORF_1
0.9448
0.239385724
0.999971366
1803
ORF sequence:
ATGGACTGGGATAGATTAAAGGCGAAAGATTTGCTGGCTCTGTTCAACTCATTTAAGCCCAAAGGAGGAGTTGTATTTTCTGTGAAGATATATCCTTCAGAGTTTGGAAAGGAGAGGATGAAGGAAGAGCAAGTTCAAGGACCAGTAGAGTTACTAAGTATTCCGGAGGATGCCCCTGAAAAGGACTGGGCCTCTAGAGAGAAGCTAAGAGACTACCAGTTCAAACGATTGAAATACTATTATGCAGTAGCGGAGTGTGATTCTCCTGAAACAGCAAGTAAGATTTATGAAGATTGTGATGGCCTGGAATTTGAAAGCAGTTGTTCTTTCATAGACTTAAGATTTATACCAGATGATATTACCTTTGATGATGAGCCCAAGGATGTGGCCTTAGAAGTTGATTTAACGGCATATAAGCCAAAGTATTTCACATCTGCTGCAATGGGAACATCAACGGTGGAGATCACTTGGGATGAGACTGACCATGAAAGAATCACGACGCTTAACAGGAAGTTTAAAAAGGATGAGCTTTTGGACATGGACTTTCAAGCCTACTTGGCTTCCTCTAGCGAGGATGAAGAGGAGGTAGAAGAAGCACCAGAAGGTGAAGAAGGAGTCAACATAGGAGAAGATGGGAAGACAAAGAAAAGTCAGAAGGATGATGAAGAACAAATTGCTAAATACAGACAGCTCTTGCAGGTTATTCAAGAAAAAGAAAAGAAAGGAAAAGAAAATGATATGGAAATGGAAATCAAATGGGTTCCAGGTCTTAAGGAGAGTGCAGAAGAGATGGTCAAAAACAAGTTGGAGGGAAAGGATAAACTGACCCCTTGGGAACAGTTTTTAGAGAAGAAGAAAGAGAAGAAAAGACTGAAAAAGAAACAGAAGATTACACGTCGACTAGCAGTTTGTAACATGGACTGGGATAGATTAAAGGCGAAAGATTTGCTGGCTCTGTTCAACTCATTTAAGCCCAAAGGAGGAGTTGTATTTTCTGTGAAGATATATCCTTCAGAGTTTGGAAAGGAGAGGATGAAGGAAGAGCAAGTTCAAGGACCAGTAGAGTTACTAAGTATTCCGGAGGATGCCCCTGAAAAGGACTGGGCCTCTAGAGAGAAGCTAAGAGACTACCAGTTCAAACGATTGAAATACTATTATGCAGTAGCGGAGTGTGATTCTCCTGAAACAGCAAGTAAGATTTATGAAGATTGTGATGGCCTGGAATTTGAAAGCAGTTGTTCTTTCATAGACTTAAGATTTATACCAGATGATATTACCTTTGATGATGAGCCCAAGGATGTGGCCTTAGAAGTTGATTTAACGGCATATAAGCCAAAGTATTTCACATCTGCTGCAATGGGAACATCAACGGTGGAGATCACTTGGGATGAGACTGACCATGAAAGAATCACGACGCTTAACAGGAAGTTTAAAAAGGATGAGCTTTTGGACATGGACTTTCAAGCCTACTTGGCTTCCTCTAGCGAGGATGAAGAGGAGGTAGAAGAAGCACCAGAAGGTGAAGAAGGAGTCAACATAGGAGAAGATGGGAAGACAAAGAAAAGTCAGAAGGATGATGAAGAACAAATTGCTAAATACAGACAGCTCTTGCAGGTTATTCAAGAAAAAGAAAAGAAAGGAAAAGAAAATGATATGGAAATGGAAATCAAATGGGTTCCAGGTCTTAAGGAGAGTGCAGAAGAGATGGTCAAAAACAAGTTGGAGGGAAAGGATAAACTGACCCCTTGGGAACAGTTTTTAGAGAAGAAGAAAGAGAAGAAAAGACTGAAAAAGAAACAGAAG
Peptide sequence:
MDWDRLKAKDLLALFNSFKPKGGVVFSVKIYPSEFGKERMKEEQVQGPVELLSIPEDAPEKDWASREKLRDYQFKRLKYYYAVAECDSPETASKIYEDCDGLEFESSCSFIDLRFIPDDITFDDEPKDVALEVDLTAYKPKYFTSAAMGTSTVEITWDETDHERITTLNRKFKKDELLDMDFQAYLASSSEDEEEVEEAPEGEEGVNIGEDGKTKKSQKDDEEQIAKYRQLLQVIQEKEKKGKENDMEMEIKWVPGLKESAEEMVKNKLEGKDKLTPWEQFLEKKKEKKRLKKKQKITRRLAVCNMDWDRLKAKDLLALFNSFKPKGGVVFSVKIYPSEFGKERMKEEQVQGPVELLSIPEDAPEKDWASREKLRDYQFKRLKYYYAVAECDSPETASKIYEDCDGLEFESSCSFIDLRFIPDDITFDDEPKDVALEVDLTAYKPKYFTSAAMGTSTVEITWDETDHERITTLNRKFKKDELLDMDFQAYLASSSEDEEEVEEAPEGEEGVNIGEDGKTKKSQKDDEEQIAKYRQLLQVIQEKEKKGKENDMEMEIKWVPGLKESAEEMVKNKLEGKDKLTPWEQFLEKKKEKKRLKKKQK
IRESfinder result
IRESfinder score
0.511046114
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page