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mmu_circAp2b1_1012
Basic information of circular RNA
PanCircBase ID:
mmu_circAp2b1_1012
mm39_Chr. Position ID:
chr11|83212764|83227687|+
Gene name:
Ap2b1
Transcript:
ENSMUST00000018875.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
4,5,6,7,8,9
Exon/intron offsets:
0,2572,11047,13442,14403,14827
Genomic length:
14923
Exon/intron sizes in nt:
136,246,191,222,121,96
Flanking exon/introns:
chr11:83207351-83212764|chr11:83227687-83230138
Splice length:
1012
Other database IDs:
CIRCpedia: MMU_CIRCpedia_229839, circAtlas: mmu-Ap2b1_0041
circBase: hsa_circ_0043118, circAtlas: hsa-AP2B1_0034, CIRCpedia: HSA_CIRCpedia_20236
Human Ortholog IDs:
Mature spliced Sequence:
CTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCAGACATGGCCATCATGGCTGTCAACAGCTTTGTGAAGGATTGTGAAGATCCCAATCCTTTGATTCGAGCCTTGGCAGTTAGAACCATGGGATGCATCCGGGTGGACAAGATTACAGAGTATCTCTGTGAACCCCTCCGCAAGTGCTTGAAGGATGAAGACCCCTATGTTCGGAAAACGGCAGCAGTATGCGTGGCAAAACTCCATGATATCAATGCCCAGATGGTGGAAGATCAGGGATTTCTGGATTCTCTGCGGGATCTCATAGCAGATTCAAACCCAATGGTGGTGGCTAATGCTGTAGCAGCATTGTCTGAGATCAGTGAGTCTCACCCAAACAGCAACTTACTTGATCTGAACCCTCAGAATATCAATAAGCTGCTCACAGCCCTGAATGAATGCACTGAATGGGGCCAGATTTTCATCCTGGACTGCCTGTCTAATTACAACCCTAAAGATGACCGGGAAGCTCAGAGCATCTGTGAGCGAGTAACGCCTCGGCTCTCCCACGCCAACTCTGCAGTGGTGCTTTCAGCCGTAAAAGTCCTAATGAAGTTTCTAGAATTGTTGCCCAAGGACTCTGACTACTACAATATGCTGCTAAAGAAGTTAGCACCTCCACTTGTCACGTTGCTGTCTGGGGAGCCAGAAGTACAGTACGTCGCCCTGAGGAACATCAACCTAATTGTCCAGAAAAGGCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAGCTGTGAGGGCCATTG
59.75
TGGCTGACTCTTGGCATAGT
58.72
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAAGCTGTGAGGGCCATTG
59.75
TGGCTGACTCTTGGCATAGTT
59.37
143
PCR template sequence:
TCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGCTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-15b-5p(1), mmu-miR-29c-3p(1), mmu-miR-148b-3p(1), mmu-miR-328-3p(1), mmu-miR-320-3p(1), mmu-miR-433-3p(1), mmu-miR-705(1), mmu-miR-673-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCAAAGTGGAGCTCTCTCTTCCCA
siRNA sets
AAGAGAGAGCTCCACTTTG,AGAGAGAGCTCCACTTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP2B1_1012_ORF_1
1.2551
0.356791939
0.997226058
1023
ORF sequence:
ATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCAGACATGGCCATCATGGCTGTCAACAGCTTTGTGAAGGATTGTGAAGATCCCAATCCTTTGATTCGAGCCTTGGCAGTTAGAACCATGGGATGCATCCGGGTGGACAAGATTACAGAGTATCTCTGTGAACCCCTCCGCAAGTGCTTGAAGGATGAAGACCCCTATGTTCGGAAAACGGCAGCAGTATGCGTGGCAAAACTCCATGATATCAATGCCCAGATGGTGGAAGATCAGGGATTTCTGGATTCTCTGCGGGATCTCATAGCAGATTCAAACCCAATGGTGGTGGCTAATGCTGTAGCAGCATTGTCTGAGATCAGTGAGTCTCACCCAAACAGCAACTTACTTGATCTGAACCCTCAGAATATCAATAAGCTGCTCACAGCCCTGAATGAATGCACTGAATGGGGCCAGATTTTCATCCTGGACTGCCTGTCTAATTACAACCCTAAAGATGACCGGGAAGCTCAGAGCATCTGTGAGCGAGTAACGCCTCGGCTCTCCCACGCCAACTCTGCAGTGGTGCTTTCAGCCGTAAAAGTCCTAATGAAGTTTCTAGAATTGTTGCCCAAGGACTCTGACTACTACAATATGCTGCTAAAGAAGTTAGCACCTCCACTTGTCACGTTGCTGTCTGGGGAGCCAGAAGTACAGTACGTCGCCCTGAGGAACATCAACCTAATTGTCCAGAAAAGGCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGCTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGA
Peptide sequence:
MQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVELSLPRCGELHAD
IRESfinder result
IRESfinder score
0.480650572
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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