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mmu_circAp2b1_1846
Basic information of circular RNA
PanCircBase ID:
mmu_circAp2b1_1846
mm39_Chr. Position ID:
chr11|83212764|83241997|+
Gene name:
Ap2b1
Transcript:
ENSMUST00000018875.13
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:
0,2572,11047,13442,14403,14827,17374,19335,20661,24709,29040
Genomic length:
29233
Exon/intron sizes in nt:
13,62,46,19,12,22,12,10,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:83207351-83212764|chr11:83241997-83255620
Splice length:
1846
Other database IDs:
CIRCpedia: MMU_CIRCpedia_31254, circAtlas: mmu-Ap2b1_0026
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCAGACATGGCCATCATGGCTGTCAACAGCTTTGTGAAGGATTGTGAAGATCCCAATCCTTTGATTCGAGCCTTGGCAGTTAGAACCATGGGATGCATCCGGGTGGACAAGATTACAGAGTATCTCTGTGAACCCCTCCGCAAGTGCTTGAAGGATGAAGACCCCTATGTTCGGAAAACGGCAGCAGTATGCGTGGCAAAACTCCATGATATCAATGCCCAGATGGTGGAAGATCAGGGATTTCTGGATTCTCTGCGGGATCTCATAGCAGATTCAAACCCAATGGTGGTGGCTAATGCTGTAGCAGCATTGTCTGAGATCAGTGAGTCTCACCCAAACAGCAACTTACTTGATCTGAACCCTCAGAATATCAATAAGCTGCTCACAGCCCTGAATGAATGCACTGAATGGGGCCAGATTTTCATCCTGGACTGCCTGTCTAATTACAACCCTAAAGATGACCGGGAAGCTCAGAGCATCTGTGAGCGAGTAACGCCTCGGCTCTCCCACGCCAACTCTGCAGTGGTGCTTTCAGCCGTAAAAGTCCTAATGAAGTTTCTAGAATTGTTGCCCAAGGACTCTGACTACTACAATATGCTGCTAAAGAAGTTAGCACCTCCACTTGTCACGTTGCTGTCTGGGGAGCCAGAAGTACAGTACGTCGCCCTGAGGAACATCAACCTAATTGTCCAGAAAAGGCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGCAATCAGCAGAACGCTGTGTAAGCACACTGCTTGATCTAATCCAGACCAAAGTAAATTATGTGGTCCAAGAGGCAATTGTTGTCATCAGGGACATCTTCCGAAAATACCCCAACAAGTATGAAAGTATTATTGCCACCCTCTGTGAAAACTTGGACTCCCTGGATGAACCCGATGCCCGAGCAGCTATGATTTGGATTGTAGGAGAATATGCTGAAAGAATCGATAACGCAGATGAATTACTAGAGAGTTTCCTGGAAGGTTTTCATGACGAAAGCACCCAGGTGCAGCTCACACTGCTCACCGCCATAGTGAAGCTGTTTCTCAAGAAGCCATCAGAAACACAGGAGCTGGTCCAACAGGTCTTGAGCTTAGCCACACAGGACTCCGATAACCCTGACCTTCGAGATCGGGGTTATATATATTGGCGCCTTCTTTCAACTGACCCTGTGACAGCCAAAGAAGTGGTGTTGTCTGAGAAGCCATTGATCTCTGAGGAGACAGACCTCATTGAGCCTACCCTCCTGGATGAGCTCATCTGCCACATTGGTTCTTTGGCCTCTGTGTACCACAAACCTCCAAATGCTTTTGTGGAAGGGAGTCATGGGATTCATCGCAAACACTTGCCAATTCATCATGGGAGCACTGATGCAGGTGATAGCCCCGTTGGCACCACCACTACAACCAACCTGGAGCAGCCTCAGGTCATTCCCTCTCAAGGTGACCTTCTGGGGGATCTTTTGAATCTTGACCTGGGTCCCCCAGTGAATGTCCCGCAAGTGTCCTCCATGCAGATGGGAGCGGTGGATCTTTTAGGAGGAGGACTGGATAGCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAATCTTGACCTGGGTCCCC
59.74
CAGGTTGTCAGTCTGCATGC
59.48
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAATCTTGACCTGGGTCCCC
59.74
TTCCAGGTTGTCAGTCTGCA
59.16
143
PCR template sequence:
TCTTTTGAATCTTGACCTGGGTCCCCCAGTGAATGTCCCGCAAGTGTCCTCCATGCAGATGGGAGCGGTGGATCTTTTAGGAGGAGGACTGGATAGCCTGCTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(2), 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-181b-5p(1), mmu-miR-433-3p(1), mmu-miR-705(1), mmu-miR-1198-5p(1), mmu-miR-410-3p(1), mmu-miR-673-5p(1), mmu-miR-350-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTGGATAGCCTGCTCTCTCTTCCCA
siRNA sets
AAGAGAGAGCAGGCTATCC, TGGGAAGAGAGAGCAGGCT, AGAGAGAGCAGGCTATCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP2B1_1846_ORF_1
1.2461
0.319778615
0.999991674
1857
ORF sequence:
ATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCAGACATGGCCATCATGGCTGTCAACAGCTTTGTGAAGGATTGTGAAGATCCCAATCCTTTGATTCGAGCCTTGGCAGTTAGAACCATGGGATGCATCCGGGTGGACAAGATTACAGAGTATCTCTGTGAACCCCTCCGCAAGTGCTTGAAGGATGAAGACCCCTATGTTCGGAAAACGGCAGCAGTATGCGTGGCAAAACTCCATGATATCAATGCCCAGATGGTGGAAGATCAGGGATTTCTGGATTCTCTGCGGGATCTCATAGCAGATTCAAACCCAATGGTGGTGGCTAATGCTGTAGCAGCATTGTCTGAGATCAGTGAGTCTCACCCAAACAGCAACTTACTTGATCTGAACCCTCAGAATATCAATAAGCTGCTCACAGCCCTGAATGAATGCACTGAATGGGGCCAGATTTTCATCCTGGACTGCCTGTCTAATTACAACCCTAAAGATGACCGGGAAGCTCAGAGCATCTGTGAGCGAGTAACGCCTCGGCTCTCCCACGCCAACTCTGCAGTGGTGCTTTCAGCCGTAAAAGTCCTAATGAAGTTTCTAGAATTGTTGCCCAAGGACTCTGACTACTACAATATGCTGCTAAAGAAGTTAGCACCTCCACTTGTCACGTTGCTGTCTGGGGAGCCAGAAGTACAGTACGTCGCCCTGAGGAACATCAACCTAATTGTCCAGAAAAGGCCTGAAATCTTGAAGCAGGAAATCAAGGTCTTCTTTGTGAAGTACAATGATCCTATCTATGTTAAACTAGAGAAGTTAGACATCATGATTCGTCTTGCATCCCAAGCCAACATTGCTCAGGTTCTGGCGGAGCTGAAGGAATATGCCACTGAAGTTGATGTGGACTTTGTTCGCAAAGCTGTGAGGGCCATTGGACGGTGTGCCATCAAAGTGGAGCAATCAGCAGAACGCTGTGTAAGCACACTGCTTGATCTAATCCAGACCAAAGTAAATTATGTGGTCCAAGAGGCAATTGTTGTCATCAGGGACATCTTCCGAAAATACCCCAACAAGTATGAAAGTATTATTGCCACCCTCTGTGAAAACTTGGACTCCCTGGATGAACCCGATGCCCGAGCAGCTATGATTTGGATTGTAGGAGAATATGCTGAAAGAATCGATAACGCAGATGAATTACTAGAGAGTTTCCTGGAAGGTTTTCATGACGAAAGCACCCAGGTGCAGCTCACACTGCTCACCGCCATAGTGAAGCTGTTTCTCAAGAAGCCATCAGAAACACAGGAGCTGGTCCAACAGGTCTTGAGCTTAGCCACACAGGACTCCGATAACCCTGACCTTCGAGATCGGGGTTATATATATTGGCGCCTTCTTTCAACTGACCCTGTGACAGCCAAAGAAGTGGTGTTGTCTGAGAAGCCATTGATCTCTGAGGAGACAGACCTCATTGAGCCTACCCTCCTGGATGAGCTCATCTGCCACATTGGTTCTTTGGCCTCTGTGTACCACAAACCTCCAAATGCTTTTGTGGAAGGGAGTCATGGGATTCATCGCAAACACTTGCCAATTCATCATGGGAGCACTGATGCAGGTGATAGCCCCGTTGGCACCACCACTACAACCAACCTGGAGCAGCCTCAGGTCATTCCCTCTCAAGGTGACCTTCTGGGGGATCTTTTGAATCTTGACCTGGGTCCCCCAGTGAATGTCCCGCAAGTGTCCTCCATGCAGATGGGAGCGGTGGATCTTTTAGGAGGAGGACTGGATAGCCTGCTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGA
Peptide sequence:
MQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMVVANAVAALSEISESHPNSNLLDLNPQNINKLLTALNECTEWGQIFILDCLSNYNPKDDREAQSICERVTPRLSHANSAVVLSAVKVLMKFLELLPKDSDYYNMLLKKLAPPLVTLLSGEPEVQYVALRNINLIVQKRPEILKQEIKVFFVKYNDPIYVKLEKLDIMIRLASQANIAQVLAELKEYATEVDVDFVRKAVRAIGRCAIKVEQSAERCVSTLLDLIQTKVNYVVQEAIVVIRDIFRKYPNKYESIIATLCENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVKLFLKKPSETQELVQQVLSLATQDSDNPDLRDRGYIYWRLLSTDPVTAKEVVLSEKPLISEETDLIEPTLLDELICHIGSLASVYHKPPNAFVEGSHGIHRKHLPIHHGSTDAGDSPVGTTTTTNLEQPQVIPSQGDLLGDLLNLDLGPPVNVPQVSSMQMGAVDLLGGGLDSLLSLPRCGELHAD
IRESfinder result
IRESfinder score
0.530477891
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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