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mmu_circCadps_1412
Basic information of circular RNA
PanCircBase ID:
mmu_circCadps_1412
mm39_Chr. Position ID:
chr14|9853616|9963979|+
Gene name:
Cadps
Transcript:
ENSMUST00000112657.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
4,5,6,7,8,9,10,11,12,13,14
Exon/intron offsets:
0,12291,18655,65233,69723,79759,87565,93731,106900,106916,110175
Genomic length:
110363
Exon/intron sizes in nt:
81,234,122,112,140,67,109,213,11,135,188
Flanking exon/introns:
chr14:9764251-9853616|chr14:9963979-9977899
Splice length:
1412
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGGACAATCCAGATGAGCAGGCAGCCCAGATCAGACGAGAGCTGGATGGACGTCTCCAAATGGCAGATCAAATAGCCAGGGAACGCAAATTTCCTAAGTTCGTATCCAAAGAAATGGAAAACATGTACATTGAGGAGCTGAAGTCCTCCGTCAACCTGCTCATGGCCAACTTGGAGAGCATGCCGGTGTCCAAGGGTGGAGAGTTCAAGCTACAGAAACTGAAACGCAGTCACAATGCTTCCATCATTGACATGGGTGAGGAGAGTGAGAACCAGCTTTCTAAGTCAGATGTCCTGCTGTCCTTCTCCTTGGAGGTGGTGATCATGGAAGTCCAAGGCCTTAAGTCCTTGGCTCCAAATCGAATTGTATACTGCACAATGGAGGTGGAGGGTGGAGAGAAACTTCAGACAGATCAAGCAGAGGCTTCTAAACCAACCTGGGGCACTCAAGGCGACTTCTCCACAACCCATGCGCTGCCAGCTGTTAAAGTAAAACTATTCACAGAGAGCACTGGTGTCCTGGCCTTGGAAGACAAGGAACTCGGGCGGGTGATCCTCCATCCCACCCCAAATAGCCCCAAACAATCTGAGTGGCACAAAATGACAGTCTCCAAAAACTGCCCCGATCAAGACCTCAAAATCAAACTTGCTGTCCGAATGGATAAGCCTCAAAACATGAAGCACTCTGGGTACTTATGGACCATTGGTAAGAATGTGTGGAAGAGGTGGAAGAAGAGGTTCTTTGTGTTGGTGCAGGTCAGCCAGTACACTTTTGCCATGTGCAGCTATCGAGAAAAGAAGGCAGAGCCTCAGGAACTCCTACAGCTGGACGGCTACACCGTGGATTACACCGACCCTCAGCCAGGTTTGGAGGGTGGCCGAGCCTTCTTCAATGCAGTCAAAGAAGGAGACACGGTGATATTTGCAAGTGATGATGAACAAGATCGAATTTTGTGGGTCCAAGCTATGTACAGGGCCACTGGCCAGTCGCACAAACCTGTTCCCCCTACCCAGGTGCAGAAGCTCAACGCCAAGGGCGGAAATGTGCCTCAGCTGGATGCCCCCATCTCACAATTTTGTGTAAATGAAGCAGATAGAGCTCAGAAGCATGGCATGGATGAATTTATCTCTTCCAACCCCTGTAACTTTGACCACGCTTCCCTCTTTGAGATGGTGCAGCGGCTGACTTTGGATCACAGACTTAATGATTCCTATTCTTGCCTGGGCTGGTTCAGTCCTGGCCAGGTGTTTGTGTTAGATGAGTATTGCGCCAGAAATGGAGTCCGAGGATGTCACCGGCATCTCTGCTACCTTAGAGACTTGCTGGAACGAGCAGAAAATGGCGCGATGATTGACCCCACGCTTCTTCACTACAGCTTTGCCTTCTGCGCGTCCCATGTCCATGGTAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGAAAATGGCGCGATGAT
59.97
TCTGCCATTTGGAGACGTCC
60.04
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGACTTGCTGGAACGAGC
60.04
TCCATCCAGCTCTCGTCTGA
60.03
149
PCR template sequence:
TTAGAGACTTGCTGGAACGAGCAGAAAATGGCGCGATGATTGACCCCACGCTTCTTCACTACAGCTTTGCCTTCTGCGCGTCCCATGTCCATGGTAACAGCTGGACAATCCAGATGAGCAGGCAGCCCAGATCAGACGAGAGCTGGATGGACGTCTCCAAATGGCAGATCAAATAGCCAGGGAACGCAAATTTCCTAAGT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(3), mmu-miR-29a-3p(1), mmu-miR-33-5p(1), mmu-miR-320-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TCCATGGTAACAGCTGGACAATCCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCADPS_1412_ORF_1
0.9759
0.295801137
0.999671298
1428
ORF sequence:
ATGGCAGATCAAATAGCCAGGGAACGCAAATTTCCTAAGTTCGTATCCAAAGAAATGGAAAACATGTACATTGAGGAGCTGAAGTCCTCCGTCAACCTGCTCATGGCCAACTTGGAGAGCATGCCGGTGTCCAAGGGTGGAGAGTTCAAGCTACAGAAACTGAAACGCAGTCACAATGCTTCCATCATTGACATGGGTGAGGAGAGTGAGAACCAGCTTTCTAAGTCAGATGTCCTGCTGTCCTTCTCCTTGGAGGTGGTGATCATGGAAGTCCAAGGCCTTAAGTCCTTGGCTCCAAATCGAATTGTATACTGCACAATGGAGGTGGAGGGTGGAGAGAAACTTCAGACAGATCAAGCAGAGGCTTCTAAACCAACCTGGGGCACTCAAGGCGACTTCTCCACAACCCATGCGCTGCCAGCTGTTAAAGTAAAACTATTCACAGAGAGCACTGGTGTCCTGGCCTTGGAAGACAAGGAACTCGGGCGGGTGATCCTCCATCCCACCCCAAATAGCCCCAAACAATCTGAGTGGCACAAAATGACAGTCTCCAAAAACTGCCCCGATCAAGACCTCAAAATCAAACTTGCTGTCCGAATGGATAAGCCTCAAAACATGAAGCACTCTGGGTACTTATGGACCATTGGTAAGAATGTGTGGAAGAGGTGGAAGAAGAGGTTCTTTGTGTTGGTGCAGGTCAGCCAGTACACTTTTGCCATGTGCAGCTATCGAGAAAAGAAGGCAGAGCCTCAGGAACTCCTACAGCTGGACGGCTACACCGTGGATTACACCGACCCTCAGCCAGGTTTGGAGGGTGGCCGAGCCTTCTTCAATGCAGTCAAAGAAGGAGACACGGTGATATTTGCAAGTGATGATGAACAAGATCGAATTTTGTGGGTCCAAGCTATGTACAGGGCCACTGGCCAGTCGCACAAACCTGTTCCCCCTACCCAGGTGCAGAAGCTCAACGCCAAGGGCGGAAATGTGCCTCAGCTGGATGCCCCCATCTCACAATTTTGTGTAAATGAAGCAGATAGAGCTCAGAAGCATGGCATGGATGAATTTATCTCTTCCAACCCCTGTAACTTTGACCACGCTTCCCTCTTTGAGATGGTGCAGCGGCTGACTTTGGATCACAGACTTAATGATTCCTATTCTTGCCTGGGCTGGTTCAGTCCTGGCCAGGTGTTTGTGTTAGATGAGTATTGCGCCAGAAATGGAGTCCGAGGATGTCACCGGCATCTCTGCTACCTTAGAGACTTGCTGGAACGAGCAGAAAATGGCGCGATGATTGACCCCACGCTTCTTCACTACAGCTTTGCCTTCTGCGCGTCCCATGTCCATGGTAACAGCTGGACAATCCAGATGAGCAGGCAGCCCAGATCAGACGAGAGCTGGATGGACGTCTCCAAATGGCAGATCAAATAG
Peptide sequence:
MADQIARERKFPKFVSKEMENMYIEELKSSVNLLMANLESMPVSKGGEFKLQKLKRSHNASIIDMGEESENQLSKSDVLLSFSLEVVIMEVQGLKSLAPNRIVYCTMEVEGGEKLQTDQAEASKPTWGTQGDFSTTHALPAVKVKLFTESTGVLALEDKELGRVILHPTPNSPKQSEWHKMTVSKNCPDQDLKIKLAVRMDKPQNMKHSGYLWTIGKNVWKRWKKRFFVLVQVSQYTFAMCSYREKKAEPQELLQLDGYTVDYTDPQPGLEGGRAFFNAVKEGDTVIFASDDEQDRILWVQAMYRATGQSHKPVPPTQVQKLNAKGGNVPQLDAPISQFCVNEADRAQKHGMDEFISSNPCNFDHASLFEMVQRLTLDHRLNDSYSCLGWFSPGQVFVLDEYCARNGVRGCHRHLCYLRDLLERAENGAMIDPTLLHYSFAFCASHVHGNSWTIQMSRQPRSDESWMDVSKWQIK
IRESfinder result
IRESfinder score
0.402777591
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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