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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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Institute of Life sciences, Bhubaneswar, India

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