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mmu_circAp2b1_488
Basic information of circular RNA
PanCircBase ID:
mmu_circAp2b1_488
mm39_Chr. Position ID:
chr11|83207245|83215582|+
Gene name:
Ap2b1
Transcript:
ENSMUST00000176944.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,5519,8091
Genomic length:
8337
Exon/intron sizes in nt:
10,61,36,246
Flanking exon/introns:
chr11:83199100-83207245|chr11:83215582-83223811
Splice length:
488
Other database IDs:
CIRCpedia: MMU_CIRCpedia_224627, circAtlas: mmu-Ap2b1_0004
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_20234
Human Ortholog IDs:
Mature spliced Sequence:
GAGAAATTTTTGAATTAAAAGCTGAACTCAACAATGAAAAGAAAGAAAAGAGGAAGGAGGCTGTGAAGAAAGTGATTGCTGCTATGACCGTGGGGAAGGACGTGAGCTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCAGACATGGCCATCATGGCTGTCAACAGCTTTGTGAAGGATTGTGAAGATCCCAATCCTTTGATTCGAGCCTTGGCAGTTAGAACCATGGGATGCATCCGGGTGGACAAGATTACAGAGTATCTCTGTGAACCCCTCCGCAAGTGCTTGAAGGATGAAGACCCCTATGTTCGGAAAACGGCAGCAGTATGCGTGGCAAAACTCCATGATATCAATGCCCAGATGGTGGAAGATCAGGGATTTCTGGATTCTCTGCGGGATCTCATAGCAGATTCAAACCCAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGGATTCTCTGCGGGATCTC
60
CTTCCCCACGGTCATAGCAG
60.18
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGATTCTCTGCGGGATC
58.96
CTTCCCCACGGTCATAGCAG
60.18
141
PCR template sequence:
AGTATGCGTGGCAAAACTCCATGATATCAATGCCCAGATGGTGGAAGATCAGGGATTTCTGGATTCTCTGCGGGATCTCATAGCAGATTCAAACCCAATGGAGAAATTTTTGAATTAAAAGCTGAACTCAACAATGAAAAGAAAGAAAAGAGGAAGGAGGCTGTGAAGAAAGTGATTGCTGCTATGACCGTGGGGAAGGA
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-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-320-3p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAAACCCAATGGAGAAATTTTTGA
siRNA sets
AATTTCTCCATTGGGTTTG, AAAAATTTCTCCATTGGGT, AAAATTTCTCCATTGGGTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAP2B1_488_ORF_1
1.2078
0.38907384
0.835265608
423
ORF sequence:
ATGACCGTGGGGAAGGACGTGAGCTCTCTCTTCCCAGATGTGGTGAACTGCATGCAGACTGACAACCTGGAACTAAAGAAGCTCGTGTACCTCTATCTGATGAACTATGCCAAGAGTCAGCCAGACATGGCCATCATGGCTGTCAACAGCTTTGTGAAGGATTGTGAAGATCCCAATCCTTTGATTCGAGCCTTGGCAGTTAGAACCATGGGATGCATCCGGGTGGACAAGATTACAGAGTATCTCTGTGAACCCCTCCGCAAGTGCTTGAAGGATGAAGACCCCTATGTTCGGAAAACGGCAGCAGTATGCGTGGCAAAACTCCATGATATCAATGCCCAGATGGTGGAAGATCAGGGATTTCTGGATTCTCTGCGGGATCTCATAGCAGATTCAAACCCAATGGAGAAATTTTTGAATTAA
Peptide sequence:
MTVGKDVSSLFPDVVNCMQTDNLELKKLVYLYLMNYAKSQPDMAIMAVNSFVKDCEDPNPLIRALAVRTMGCIRVDKITEYLCEPLRKCLKDEDPYVRKTAAVCVAKLHDINAQMVEDQGFLDSLRDLIADSNPMEKFLN
IRESfinder result
IRESfinder score
0.390300032
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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