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mmu_circPolr2b_819
Basic information of circular RNA
PanCircBase ID:
mmu_circPolr2b_819
mm39_Chr. Position ID:
chr5|77488221|77493258|+
Gene name:
Polr2b
Transcript:
ENSMUST00000031167.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
18,19,20,21,22,23
Exon/intron offsets:
0,2155,2486,2795,4417,4876
Genomic length:
5037
Exon/intron sizes in nt:
9,52,51,90,10,81,14,160
Flanking exon/introns:
chr5:77487264-77488221|chr5:77493258-77496069
Splice length:
819
Other database IDs:
circBase: hsa_circ_0126704, circAtlas: hsa-POLR2B_0012, CIRCpedia: HSA_CIRCpedia_137408
Human Ortholog IDs:
Mature spliced Sequence:
GTCTGTTTTCTACCGATCATACAAAGAACAAGAGTCTAAAAAGGGATTTGATCAAGAAGAAGTGTTTGAGAAGCCTACACGTGAGACATGCCAGGGAATGAGGCATGCCATCTATGAAAAGTTGGACGATGACGGTTTGATAGCTCCGGGGGTCCGAGTCTCCGGAGATGACGTTATTATCGGCAAGACAGTCACCTTACCCGAGAACGAGGATGAGCTGGAGAGCACCAACAGGCGCTACACCAAGAGGGACTGCAGCACTTTCCTCAGAACTAGTGAGACGGGCATCGTGGACCAGGTCATGGTCACTCTCAACCAGGAAGGATATAAATTTTGTAAAATAAGGGTGCGCTCTGTTAGAATTCCGCAGATTGGAGACAAATTTGCTAGCCGACATGGTCAGAAGGGAACTTGTGGTATTCAGTATAGACAAGAGGACATGCCGTTCACTTGCGAAGGCATAACTCCTGACATCATCATAAACCCCCACGCCATCCCCTCCCGGATGACAATTGGTCACTTGATCGAATGTCTCCAAGGGAAGGTCTCTGCCAACAAGGGTGAAATTGGTGACGCTACTCCATTTAATGATGCTGTCAATGTGCAGAAGATTTCTAATCTTTTGTCTGACTATGGCTACCATCTCAGAGGGAACGAGGTGCTCTACAATGGATTCACTGGACGAAAAATCACATCACAGATTTTTATTGGCCCCACTTACTACCAGCGTTTGAAGCATATGGTGGATGACAAAATTCATTCTCGTGCTAGGGGACCCATTCAGATTCTTAACAGACAGCCCATGGAGGGCAGATCTCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCATTCTCGTGCTAGGGGAC
58.89
ATTCCCTGGCATGTCTCACG
60.11
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCATTCTCGTGCTAGGGGAC
58.89
GCATGTCTCACGTGTAGGCT
60.11
154
PCR template sequence:
ACTACCAGCGTTTGAAGCATATGGTGGATGACAAAATTCATTCTCGTGCTAGGGGACCCATTCAGATTCTTAACAGACAGCCCATGGAGGGCAGATCTCGGTCTGTTTTCTACCGATCATACAAAGAACAAGAGTCTAAAAAGGGATTTGATCAAGAAGAAGTGTTTGAGAAGCCTACACGTGAGACATGCCAGGGAATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-134-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-211-5p(1), mmu-miR-106b-5p(1), mmu-miR-431-5p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGCAGATCTCGGTCTGTTTTCTAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPOLR2B_819_ORF_1
1.1857
0.271857565
0.999892835
1539
ORF sequence:
ATGAGGCATGCCATCTATGAAAAGTTGGACGATGACGGTTTGATAGCTCCGGGGGTCCGAGTCTCCGGAGATGACGTTATTATCGGCAAGACAGTCACCTTACCCGAGAACGAGGATGAGCTGGAGAGCACCAACAGGCGCTACACCAAGAGGGACTGCAGCACTTTCCTCAGAACTAGTGAGACGGGCATCGTGGACCAGGTCATGGTCACTCTCAACCAGGAAGGATATAAATTTTGTAAAATAAGGGTGCGCTCTGTTAGAATTCCGCAGATTGGAGACAAATTTGCTAGCCGACATGGTCAGAAGGGAACTTGTGGTATTCAGTATAGACAAGAGGACATGCCGTTCACTTGCGAAGGCATAACTCCTGACATCATCATAAACCCCCACGCCATCCCCTCCCGGATGACAATTGGTCACTTGATCGAATGTCTCCAAGGGAAGGTCTCTGCCAACAAGGGTGAAATTGGTGACGCTACTCCATTTAATGATGCTGTCAATGTGCAGAAGATTTCTAATCTTTTGTCTGACTATGGCTACCATCTCAGAGGGAACGAGGTGCTCTACAATGGATTCACTGGACGAAAAATCACATCACAGATTTTTATTGGCCCCACTTACTACCAGCGTTTGAAGCATATGGTGGATGACAAAATTCATTCTCGTGCTAGGGGACCCATTCAGATTCTTAACAGACAGCCCATGGAGGGCAGATCTCGGTCTGTTTTCTACCGATCATACAAAGAACAAGAGTCTAAAAAGGGATTTGATCAAGAAGAAGTGTTTGAGAAGCCTACACGTGAGACATGCCAGGGAATGAGGCATGCCATCTATGAAAAGTTGGACGATGACGGTTTGATAGCTCCGGGGGTCCGAGTCTCCGGAGATGACGTTATTATCGGCAAGACAGTCACCTTACCCGAGAACGAGGATGAGCTGGAGAGCACCAACAGGCGCTACACCAAGAGGGACTGCAGCACTTTCCTCAGAACTAGTGAGACGGGCATCGTGGACCAGGTCATGGTCACTCTCAACCAGGAAGGATATAAATTTTGTAAAATAAGGGTGCGCTCTGTTAGAATTCCGCAGATTGGAGACAAATTTGCTAGCCGACATGGTCAGAAGGGAACTTGTGGTATTCAGTATAGACAAGAGGACATGCCGTTCACTTGCGAAGGCATAACTCCTGACATCATCATAAACCCCCACGCCATCCCCTCCCGGATGACAATTGGTCACTTGATCGAATGTCTCCAAGGGAAGGTCTCTGCCAACAAGGGTGAAATTGGTGACGCTACTCCATTTAATGATGCTGTCAATGTGCAGAAGATTTCTAATCTTTTGTCTGACTATGGCTACCATCTCAGAGGGAACGAGGTGCTCTACAATGGATTCACTGGACGAAAAATCACATCACAGATTTTTATTGGCCCCACTTACTACCAGCGTTTGAAGCATATGGTGGATGACAAAATTCATTCTCGTGCTAGGGGACCCATTCAGATTCTTAACAGACAGCCCATGGAGGGCAGATCT
Peptide sequence:
MRHAIYEKLDDDGLIAPGVRVSGDDVIIGKTVTLPENEDELESTNRRYTKRDCSTFLRTSETGIVDQVMVTLNQEGYKFCKIRVRSVRIPQIGDKFASRHGQKGTCGIQYRQEDMPFTCEGITPDIIINPHAIPSRMTIGHLIECLQGKVSANKGEIGDATPFNDAVNVQKISNLLSDYGYHLRGNEVLYNGFTGRKITSQIFIGPTYYQRLKHMVDDKIHSRARGPIQILNRQPMEGRSRSVFYRSYKEQESKKGFDQEEVFEKPTRETCQGMRHAIYEKLDDDGLIAPGVRVSGDDVIIGKTVTLPENEDELESTNRRYTKRDCSTFLRTSETGIVDQVMVTLNQEGYKFCKIRVRSVRIPQIGDKFASRHGQKGTCGIQYRQEDMPFTCEGITPDIIINPHAIPSRMTIGHLIECLQGKVSANKGEIGDATPFNDAVNVQKISNLLSDYGYHLRGNEVLYNGFTGRKITSQIFIGPTYYQRLKHMVDDKIHSRARGPIQILNRQPMEGRS
IRESfinder result
IRESfinder score
0.424785506
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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