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mmu_circPcbp2_981
Basic information of circular RNA
PanCircBase ID:
mmu_circPcbp2_981
mm39_Chr. Position ID:
chr15|102381719|102399238|+
Gene name:
Pcbp2
Transcript:
ENSMUST00000108838.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,846,962,1290,5331,9875,10869,13803,14920,16467,17349
Genomic length:
17519
Exon/intron sizes in nt:
11,82,43,31,17,13,21,20,00,00,00,00,000
Flanking exon/introns:
chr15:102379238-102381719|chr15:102399238-102406923
Splice length:
981
Other database IDs:
CIRCpedia: MMU_CIRCpedia_729, circAtlas: mmu-Pcbp2_0001
circAtlas: hsa-PCBP2_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGACCAAAGACTTGACCACTCAAAGTCCAGCTCCCTGTAACTGCTAGACATGGACACCGGTGTGATTGAAGGTGGATTAAATGTCACTCTCACCATCAGGCTACTTATGCATGGAAAGGAAGTTGGCAGTATCATCGGAAAGAAAGGAGAATCTGTTAAGAAGATGCGCGAGGAGAGTGGTGCACGTATCAACATCTCAGAAGGGAATTGTCCTGAGAGAATTATCACTTTGGCTGGACCGACTAATGCCATCTTCAAAGCCTTTGCTATGATCATTGACAAACTGGAAGAGGACATAAGCAGCTCTATGACCAATAGTACAGCTGCCAGTAGACCCCCGGTTACCTTACGGCTGGTGGTTCCTGCTAGTCAGTGTGGCTCTCTTATTGGAAAAGGTGGTTGCAAGATCAAGGAAATAAGAGAGAGTACAGGGGCTCAGGTCCAGGTGGCAGGGGATATGCTCCCCAACTCAACTGAGCGGGCAATCACTATTGCTGGCATTCCGCAGTCCATCATTGAGTGTGTCAAACAGATCTGCGTGGTCATGTTGGAGACTCTCTCCCAGTCCCCCCCGAAGGGCGTGACCATCCCGTACCGGCCCAAGCCCTCCAGTTCTCCAGTCATCTTTGCAGGTGGTCAGGCCTATACCATTCAAGGACAGTATGCCATTCCACAGCCAGATTTGACCAAGCTGCACCAGTTGGCAATGCAACAGTCTCATTTTCCCATGACCCATGGCAACACCGGATTCAGTGCAGGTTTGGATGCATCTGCTCAAACTACTTCTCATGAACTCACCATTCCAAATGATTTGATTGGCTGCATAATCGGGCGTCAAGGCGCCAAAATCAATGAGATCCGTCAGATGTCTGGGGCGCAGATCAAAATTGCAAACCCAGTGGAAGGATCTACTGATCGGCAGGTTACCATCACTGGATCTGCTGCCAGCATTAGCCTGGCTCAGTATCTAATCAATGTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGGCAGGTTACCATCACTG
59.75
TCCACCTTCAATCACACCGG
59.96
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGCAAACCCAGTGGAAGGA
59.74
TCCACCTTCAATCACACCGG
59.96
170
PCR template sequence:
TCAAAATTGCAAACCCAGTGGAAGGATCTACTGATCGGCAGGTTACCATCACTGGATCTGCTGCCAGCATTAGCCTGGCTCAGTATCTAATCAATGTCAGTGACCAAAGACTTGACCACTCAAAGTCCAGCTCCCTGTAACTGCTAGACATGGACACCGGTGTGATTGAAGGTGGATTAAATGTCACTCTCACCATCAGG
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-200c-3p(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
TAATCAATGTCAGTGACCAAAGACTT
siRNA sets
TTTGGTCACTGACATTGAT, CTTTGGTCACTGACATTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCBP2_981_ORF_1
1.1741
0.258232789
0.993067137
972
ORF sequence:
ATGGACACCGGTGTGATTGAAGGTGGATTAAATGTCACTCTCACCATCAGGCTACTTATGCATGGAAAGGAAGTTGGCAGTATCATCGGAAAGAAAGGAGAATCTGTTAAGAAGATGCGCGAGGAGAGTGGTGCACGTATCAACATCTCAGAAGGGAATTGTCCTGAGAGAATTATCACTTTGGCTGGACCGACTAATGCCATCTTCAAAGCCTTTGCTATGATCATTGACAAACTGGAAGAGGACATAAGCAGCTCTATGACCAATAGTACAGCTGCCAGTAGACCCCCGGTTACCTTACGGCTGGTGGTTCCTGCTAGTCAGTGTGGCTCTCTTATTGGAAAAGGTGGTTGCAAGATCAAGGAAATAAGAGAGAGTACAGGGGCTCAGGTCCAGGTGGCAGGGGATATGCTCCCCAACTCAACTGAGCGGGCAATCACTATTGCTGGCATTCCGCAGTCCATCATTGAGTGTGTCAAACAGATCTGCGTGGTCATGTTGGAGACTCTCTCCCAGTCCCCCCCGAAGGGCGTGACCATCCCGTACCGGCCCAAGCCCTCCAGTTCTCCAGTCATCTTTGCAGGTGGTCAGGCCTATACCATTCAAGGACAGTATGCCATTCCACAGCCAGATTTGACCAAGCTGCACCAGTTGGCAATGCAACAGTCTCATTTTCCCATGACCCATGGCAACACCGGATTCAGTGCAGGTTTGGATGCATCTGCTCAAACTACTTCTCATGAACTCACCATTCCAAATGATTTGATTGGCTGCATAATCGGGCGTCAAGGCGCCAAAATCAATGAGATCCGTCAGATGTCTGGGGCGCAGATCAAAATTGCAAACCCAGTGGAAGGATCTACTGATCGGCAGGTTACCATCACTGGATCTGCTGCCAGCATTAGCCTGGCTCAGTATCTAATCAATGTCAGTGACCAAAGACTTGACCACTCAAAGTCCAGCTCCCTGTAA
Peptide sequence:
MDTGVIEGGLNVTLTIRLLMHGKEVGSIIGKKGESVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKLEEDISSSMTNSTAASRPPVTLRLVVPASQCGSLIGKGGCKIKEIRESTGAQVQVAGDMLPNSTERAITIAGIPQSIIECVKQICVVMLETLSQSPPKGVTIPYRPKPSSSPVIFAGGQAYTIQGQYAIPQPDLTKLHQLAMQQSHFPMTHGNTGFSAGLDASAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASISLAQYLINVSDQRLDHSKSSSL
IRESfinder result
IRESfinder score
0.482868045
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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