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mmu_circPcbp2_652
Basic information of circular RNA
PanCircBase ID:
mmu_circPcbp2_652
mm39_Chr. Position ID:
chr15|102381695|102392675|+
Gene name:
Pcbp2
Transcript:
ENSMUST00000230129.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
2,3,4,5,6,7,8
Exon/intron offsets:
0,870,986,1314,5355,9899,10905
Genomic length:
10980
Exon/intron sizes in nt:
142,24,33,117,132,129,75
Flanking exon/introns:
chr15:102379238-102381695|chr15:102392675-102394382
Splice length:
652
Other database IDs:
CIRCpedia: MMU_CIRCpedia_726, circAtlas: mmu-Pcbp2_0004
circAtlas: hsa-RP11-793H13_0002, CIRCpedia: HSA_CIRCpedia_8920
Human Ortholog IDs:
Mature spliced Sequence:
TTTTTGGCTTTCACTCTTCACCAGTGACCAAAGACTTGACCACTCAAAGTCCAGCTCCCTGTAACTGCTAGACATGGACACCGGTGTGATTGAAGGTGGATTAAATGTCACTCTCACCATCAGGCTACTTATGCATGGAAAGGAAGTTGGCAGTATCATCGGAAAGAAAGGAGAATCTGTTAAGAAGATGCGCGAGGAGAGTGGTGCACGTATCAACATCTCAGAAGGGAATTGTCCTGAGAGAATTATCACTTTGGCTGGACCGACTAATGCCATCTTCAAAGCCTTTGCTATGATCATTGACAAACTGGAAGAGGACATAAGCAGCTCTATGACCAATAGTACAGCTGCCAGTAGACCCCCGGTTACCTTACGGCTGGTGGTTCCTGCTAGTCAGTGTGGCTCTCTTATTGGAAAAGGTGGTTGCAAGATCAAGGAAATAAGAGAGAGTACAGGGGCTCAGGTCCAGGTGGCAGGGGATATGCTCCCCAACTCAACTGAGCGGGCAATCACTATTGCTGGCATTCCGCAGTCCATCATTGAGTGTGTCAAACAGATCTGCGTGGTCATGTTGGAGTCCCCCCCGAAGGGCGTGACCATCCCGTACCGGCCCAAGCCCTCCAGTTCTCCAGTCATCTTTGCAGGTGGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGCCCTCCAGTTCTCCAG
60.04
TCCACCTTCAATCACACCGG
59.96
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTCATGTTGGAGTCCCC
60.32
ATCACACCGGTGTCCATGTC
60.04
180
PCR template sequence:
ACAGATCTGCGTGGTCATGTTGGAGTCCCCCCCGAAGGGCGTGACCATCCCGTACCGGCCCAAGCCCTCCAGTTCTCCAGTCATCTTTGCAGGTGGTCAGTTTTTGGCTTTCACTCTTCACCAGTGACCAAAGACTTGACCACTCAAAGTCCAGCTCCCTGTAACTGCTAGACATGGACACCGGTGTGATTGAAGGTGGA
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-9-5p(1), mmu-miR-205-5p(1), mmu-miR-146a-5p(1), mmu-miR-125a-5p(1), mmu-miR-3105-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCAGGTGGTCAGTTTTTGGCTTTCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCBP2_652_ORF_1
1.1529
0.259581733
0.909274712
606
ORF sequence:
ATGGACACCGGTGTGATTGAAGGTGGATTAAATGTCACTCTCACCATCAGGCTACTTATGCATGGAAAGGAAGTTGGCAGTATCATCGGAAAGAAAGGAGAATCTGTTAAGAAGATGCGCGAGGAGAGTGGTGCACGTATCAACATCTCAGAAGGGAATTGTCCTGAGAGAATTATCACTTTGGCTGGACCGACTAATGCCATCTTCAAAGCCTTTGCTATGATCATTGACAAACTGGAAGAGGACATAAGCAGCTCTATGACCAATAGTACAGCTGCCAGTAGACCCCCGGTTACCTTACGGCTGGTGGTTCCTGCTAGTCAGTGTGGCTCTCTTATTGGAAAAGGTGGTTGCAAGATCAAGGAAATAAGAGAGAGTACAGGGGCTCAGGTCCAGGTGGCAGGGGATATGCTCCCCAACTCAACTGAGCGGGCAATCACTATTGCTGGCATTCCGCAGTCCATCATTGAGTGTGTCAAACAGATCTGCGTGGTCATGTTGGAGTCCCCCCCGAAGGGCGTGACCATCCCGTACCGGCCCAAGCCCTCCAGTTCTCCAGTCATCTTTGCAGGTGGTCAGTTTTTGGCTTTCACTCTTCACCAGTGA
Peptide sequence:
MDTGVIEGGLNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAITIAGIPQSIIECVKQICVVMLESPPKGVTIPYRPKPSSSPVIFAGGQFLAFTLHQ
IRESfinder result
IRESfinder score
0.564577253
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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