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mmu_circEp400_1560
Basic information of circular RNA
PanCircBase ID:
mmu_circEp400_1560
mm39_Chr. Position ID:
chr5|110852747|110877178|-
Gene name:
Ep400
Transcript:
ENSMUST00000041558.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
20,19,18,17,16,15,14,13,12,11,10,9
Exon/intron offsets:
0,3047,3281,3892,6149,14205,14551,15854,19540,22009,22647,24352
Genomic length:
24431
Exon/intron sizes in nt:
187,137,175,170,137,178,191,108,90,58,50,79
Flanking exon/introns:
chr5:110851484-110852747|chr5:110877178-110877688
Splice length:
1560
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTGTGGAAATAAAATTACAAGTAGAATTAGAAGAGAAAAGAAAAAAAGCCTTAAATTTACAGAAAGTTTCCAGAAGAGGTAAAGAGTCCAGATTAAAGGGATTTGATACATCACCAGAACACTCTCTGGATCTAGGAATATCTGGAAGGAAAAGAAAAGCTAGCACATCTTTGACTGATGATGAAGTGGAAGATGAAGAAGAGACCATTGAAGAGGAGGAAGCACACGAAGGGCTTGTAGACCACCACACAGAACTTACTAATCTGGCCAAAGAAGCTGAGTTGCCCTTAATCGATTTGATGAAGTTGTATGAAGGTGCCTTTCTGCCAAATTTTCAGTGGCCACAGCCTGAACCTGATCATGAAGAGTCAAGTGGGGAAGAAGATGTAGAAGACTGTCCTAGTGACAGGGAGAGCCGGAGGGACTCCGTTCTCATTGACTCACTCTTCATCATGGATCAGTTTAAAGCTGCAGAGAGAATGAGCATTGGAAAATCCAACACCAAGGACATCACAGAAGTTACTGCTGTGGCTGAAGCCATCCTCCCTAAGGGCAGTGCCCGAGTCACAACTGCGGTGAAGTTTAGTGCTCCATCTTTGTTGTATGGTGCTCTCCGAGACTATCAGAAGATAGGCCTGGACTGGTTGGCCAAGCTATACCGGAAGAATCTCAATGGCATATTGGCTGATGAAGCAGGGCTTGGGAAAACTGTGCAGATCATTGCTTTTTTTGCTCACCTTGCCTGTAATGAAGGTAACTGGGGCCCTCATCTTGTTGTCATGAGGAGTTGTAACATACTCAAGTGGGAACTCGAGTTGAAACGCTGGTGTCCTGGCCTCAAAACTCTTTCTTATGTTGGCAGCCACAGAGAACTCAAAGCAAAGAGACAGGAGTGGACCGAGCCCAATAACTTCCACATCTGCATCACGTCCTATAAGCAGTTCTTCAGGGGCTACACTGCCTTCTCAAGGGTGCACTGGAAATGCCTTGTTGTTGACGAAATGCAGAGGGTGAAGGGCATGACTGAGCGGCACTGGGAAGCCATCTTCAAGCTGCAGAGCCAGCAGCGCCTGCTTCTGATCGATGTTCCTCTGCACAACACTTTCCTGGAGCTCTGGACCATGGTGCACTTCCTCATTCCTGGGATCTCCAGGCCTTATCTGAGCTTTCCTCTGAAAGCCCCCAATGAGGAAAACCAGGATTACTATCACAAAATGGTCATAAGGTTACACAGGGTCACACAGCCATTTATTTTGAGGAGAACCAAGAGAGATGTGGAGAAACAGCTAACCAGGAAATATGAGCATGTTCTGAAGTGCCGCCTTTCCAGTCGTCAGAAGGCCTTATATGAGGATGTCATCCTACAGCCTAGGACTCAGGAAGCTCTGAAGAGTGGACATTTTGTCAGTGTCTTGAGTGTTCTGACACGGCTACAGCGAATCTGCAACCATCCTGGACTAGTAGAGCCACGGGTACCAGGCTCCTCCTTTGCAGCAGGCTCTCTGCAGTATAAGTCAGCCTCTCTAATTCTCAGAGTTCTGGAGAGAGAGTTCTGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTACCAGGCTCCTCCTTTG
59.75
CTGGACTCTTTACCTCTTCTGGA
58.91
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTACCAGGCTCCTCCTTTG
59.75
TGGACTCTTTACCTCTTCTGGA
57.87
179
PCR template sequence:
AGTAGAGCCACGGGTACCAGGCTCCTCCTTTGCAGCAGGCTCTCTGCAGTATAAGTCAGCCTCTCTAATTCTCAGAGTTCTGGAGAGAGAGTTCTGGAAGGTTGTGGAAATAAAATTACAAGTAGAATTAGAAGAGAAAAGAAAAAAAGCCTTAAATTTACAGAAAGTTTCCAGAAGAGGTAAAGAGTCCAGATTAAAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
25
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-205-5p(1), mmu-miR-211-5p(1), mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-495-3p(1), mmu-miR-149-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-370-3p(1), mmu-miR-758-3p(1), mmu-miR-34b-5p(1), mmu-miR-383-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-410-3p(1), mmu-miR-1199-5p(1), mmu-miR-3105-3p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGTTCTGGAAGGTTGTGGAAATAA
siRNA sets
TTATTTCCACAACCTTCCA, ATTTCCACAACCTTCCAGA, TATTTCCACAACCTTCCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCEP400_1560_ORF_1
0.9444
0.192203534
0.999999977
2820
ORF sequence:
ATGAAGTTGTATGAAGGTGCCTTTCTGCCAAATTTTCAGTGGCCACAGCCTGAACCTGATCATGAAGAGTCAAGTGGGGAAGAAGATGTAGAAGACTGTCCTAGTGACAGGGAGAGCCGGAGGGACTCCGTTCTCATTGACTCACTCTTCATCATGGATCAGTTTAAAGCTGCAGAGAGAATGAGCATTGGAAAATCCAACACCAAGGACATCACAGAAGTTACTGCTGTGGCTGAAGCCATCCTCCCTAAGGGCAGTGCCCGAGTCACAACTGCGGTGAAGTTTAGTGCTCCATCTTTGTTGTATGGTGCTCTCCGAGACTATCAGAAGATAGGCCTGGACTGGTTGGCCAAGCTATACCGGAAGAATCTCAATGGCATATTGGCTGATGAAGCAGGGCTTGGGAAAACTGTGCAGATCATTGCTTTTTTTGCTCACCTTGCCTGTAATGAAGGTAACTGGGGCCCTCATCTTGTTGTCATGAGGAGTTGTAACATACTCAAGTGGGAACTCGAGTTGAAACGCTGGTGTCCTGGCCTCAAAACTCTTTCTTATGTTGGCAGCCACAGAGAACTCAAAGCAAAGAGACAGGAGTGGACCGAGCCCAATAACTTCCACATCTGCATCACGTCCTATAAGCAGTTCTTCAGGGGCTACACTGCCTTCTCAAGGGTGCACTGGAAATGCCTTGTTGTTGACGAAATGCAGAGGGTGAAGGGCATGACTGAGCGGCACTGGGAAGCCATCTTCAAGCTGCAGAGCCAGCAGCGCCTGCTTCTGATCGATGTTCCTCTGCACAACACTTTCCTGGAGCTCTGGACCATGGTGCACTTCCTCATTCCTGGGATCTCCAGGCCTTATCTGAGCTTTCCTCTGAAAGCCCCCAATGAGGAAAACCAGGATTACTATCACAAAATGGTCATAAGGTTACACAGGGTCACACAGCCATTTATTTTGAGGAGAACCAAGAGAGATGTGGAGAAACAGCTAACCAGGAAATATGAGCATGTTCTGAAGTGCCGCCTTTCCAGTCGTCAGAAGGCCTTATATGAGGATGTCATCCTACAGCCTAGGACTCAGGAAGCTCTGAAGAGTGGACATTTTGTCAGTGTCTTGAGTGTTCTGACACGGCTACAGCGAATCTGCAACCATCCTGGACTAGTAGAGCCACGGGTACCAGGCTCCTCCTTTGCAGCAGGCTCTCTGCAGTATAAGTCAGCCTCTCTAATTCTCAGAGTTCTGGAGAGAGAGTTCTGGAAGGTTGTGGAAATAAAATTACAAGTAGAATTAGAAGAGAAAAGAAAAAAAGCCTTAAATTTACAGAAAGTTTCCAGAAGAGGTAAAGAGTCCAGATTAAAGGGATTTGATACATCACCAGAACACTCTCTGGATCTAGGAATATCTGGAAGGAAAAGAAAAGCTAGCACATCTTTGACTGATGATGAAGTGGAAGATGAAGAAGAGACCATTGAAGAGGAGGAAGCACACGAAGGGCTTGTAGACCACCACACAGAACTTACTAATCTGGCCAAAGAAGCTGAGTTGCCCTTAATCGATTTGATGAAGTTGTATGAAGGTGCCTTTCTGCCAAATTTTCAGTGGCCACAGCCTGAACCTGATCATGAAGAGTCAAGTGGGGAAGAAGATGTAGAAGACTGTCCTAGTGACAGGGAGAGCCGGAGGGACTCCGTTCTCATTGACTCACTCTTCATCATGGATCAGTTTAAAGCTGCAGAGAGAATGAGCATTGGAAAATCCAACACCAAGGACATCACAGAAGTTACTGCTGTGGCTGAAGCCATCCTCCCTAAGGGCAGTGCCCGAGTCACAACTGCGGTGAAGTTTAGTGCTCCATCTTTGTTGTATGGTGCTCTCCGAGACTATCAGAAGATAGGCCTGGACTGGTTGGCCAAGCTATACCGGAAGAATCTCAATGGCATATTGGCTGATGAAGCAGGGCTTGGGAAAACTGTGCAGATCATTGCTTTTTTTGCTCACCTTGCCTGTAATGAAGGTAACTGGGGCCCTCATCTTGTTGTCATGAGGAGTTGTAACATACTCAAGTGGGAACTCGAGTTGAAACGCTGGTGTCCTGGCCTCAAAACTCTTTCTTATGTTGGCAGCCACAGAGAACTCAAAGCAAAGAGACAGGAGTGGACCGAGCCCAATAACTTCCACATCTGCATCACGTCCTATAAGCAGTTCTTCAGGGGCTACACTGCCTTCTCAAGGGTGCACTGGAAATGCCTTGTTGTTGACGAAATGCAGAGGGTGAAGGGCATGACTGAGCGGCACTGGGAAGCCATCTTCAAGCTGCAGAGCCAGCAGCGCCTGCTTCTGATCGATGTTCCTCTGCACAACACTTTCCTGGAGCTCTGGACCATGGTGCACTTCCTCATTCCTGGGATCTCCAGGCCTTATCTGAGCTTTCCTCTGAAAGCCCCCAATGAGGAAAACCAGGATTACTATCACAAAATGGTCATAAGGTTACACAGGGTCACACAGCCATTTATTTTGAGGAGAACCAAGAGAGATGTGGAGAAACAGCTAACCAGGAAATATGAGCATGTTCTGAAGTGCCGCCTTTCCAGTCGTCAGAAGGCCTTATATGAGGATGTCATCCTACAGCCTAGGACTCAGGAAGCTCTGAAGAGTGGACATTTTGTCAGTGTCTTGAGTGTTCTGACACGGCTACAGCGAATCTGCAACCATCCTGGACTAGTAGAGCCACGGGTACCAGGCTCCTCCTTTGCAGCAGGCTCTCTGCAGTATAAGTCAGCCTCTCTAATTCTCAGAGTTCTGGAGAGAGAGTTCTGGAAG
Peptide sequence:
MKLYEGAFLPNFQWPQPEPDHEESSGEEDVEDCPSDRESRRDSVLIDSLFIMDQFKAAERMSIGKSNTKDITEVTAVAEAILPKGSARVTTAVKFSAPSLLYGALRDYQKIGLDWLAKLYRKNLNGILADEAGLGKTVQIIAFFAHLACNEGNWGPHLVVMRSCNILKWELELKRWCPGLKTLSYVGSHRELKAKRQEWTEPNNFHICITSYKQFFRGYTAFSRVHWKCLVVDEMQRVKGMTERHWEAIFKLQSQQRLLLIDVPLHNTFLELWTMVHFLIPGISRPYLSFPLKAPNEENQDYYHKMVIRLHRVTQPFILRRTKRDVEKQLTRKYEHVLKCRLSSRQKALYEDVILQPRTQEALKSGHFVSVLSVLTRLQRICNHPGLVEPRVPGSSFAAGSLQYKSASLILRVLEREFWKVVEIKLQVELEEKRKKALNLQKVSRRGKESRLKGFDTSPEHSLDLGISGRKRKASTSLTDDEVEDEEETIEEEEAHEGLVDHHTELTNLAKEAELPLIDLMKLYEGAFLPNFQWPQPEPDHEESSGEEDVEDCPSDRESRRDSVLIDSLFIMDQFKAAERMSIGKSNTKDITEVTAVAEAILPKGSARVTTAVKFSAPSLLYGALRDYQKIGLDWLAKLYRKNLNGILADEAGLGKTVQIIAFFAHLACNEGNWGPHLVVMRSCNILKWELELKRWCPGLKTLSYVGSHRELKAKRQEWTEPNNFHICITSYKQFFRGYTAFSRVHWKCLVVDEMQRVKGMTERHWEAIFKLQSQQRLLLIDVPLHNTFLELWTMVHFLIPGISRPYLSFPLKAPNEENQDYYHKMVIRLHRVTQPFILRRTKRDVEKQLTRKYEHVLKCRLSSRQKALYEDVILQPRTQEALKSGHFVSVLSVLTRLQRICNHPGLVEPRVPGSSFAAGSLQYKSASLILRVLEREFWK
IRESfinder result
IRESfinder score
0.575212075
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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