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mmu_ciPcbp2_3902
Basic information of circular RNA
PanCircBase ID:
mmu_ciPcbp2_3902
mm39_Chr. Position ID:
chr15|102383126|102387028|+
Gene name:
Pcbp2
Transcript:
ENSMUST00000230129.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
3902
Exon/intron sizes in nt:
3902
Flanking exon/introns:
chr15:102383126-102387050
Splice length:
3902
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGTTGTACCTTTATGATTGCCTCCTCCTCCCATACCAGGCAATAAAAAAAATAAAGTTCATGTTAAGTAATTGGGCTATATACCCTCAGTTGACTTTTTTTTTAATATAATTTTATTCTATGTTCATTAGTGTTTTATCTGAGTGTATGTTTATGGAAGGTGTGTCAGAACCTCTGGAACTGTAGTTGCAGACTCCAGGTGTGAGCCATTACATGACTGGTGGGAAATGAACCTGGTTCTTTTGGAAGAGCAGTTACCACTCTTTTTTTTTTTTAAAGAATTTTTTTTTTTATATGTAAGTACATTGCAGCTGTCTTCAGACACACCAGGAGAGAGGGAGTCAGATGTCATTACGCATGGTTGTAAGCCACCATGTGGTTGCTGGGATTTGAACTCAGAACCTTTGGAAGAGCAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCCCAGTTATCACTTTTAGCACCAAGTCATCTCTTCACACACACACTTTTAGTATGGTTTTTAGTATTTTTATTTTTTGACATAAGGGTCTCGTTTTGTAAATCTGGCACTACTGTGAGTCCTTCAGCACGTCTGGGATAGGCTCCTGAGTGCTGAGATTACATGGAAATATGCATTACCTTTTCTAATTTTGCCATTTACAGTGTTTTTAGTAATTGTTTCACAGGTATGCTATTGCTTTCTTTACAGTTGAATGAACTTAATGTGCTTTTTAAATTTTTTTTAAAATTTTTTGGGTGTTTTTCGAGACAGGGTTTCTCTTGTCCTGGAACTCACTCTGTAGACCATGCTGGCCTCGAACTCAGAAATTCGCCTGCCTCTCCCTCCTGAGTGCTAGGATTAAAGGCGTGTGCTACCACTGCTCGGCTTTAATGTACTTTTTATTAGGATACTGCTGAAAAACTAGGACATTTTACAAACAGTTTTACAAACCCTGTGTGCTGTTGGATTTTAAACTATAATAGATACTGATAATACTGTATTAAAAGTTAAGAGGGGCCAGGCAATGGTGGCGCACGCCTTTAATTCCAGCACTTGGGAGGCAGAGGCAGGCAGATTTCTTTGAAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAAAGAAACCCTGTCTTCAAAACAAAACAAAACAAAAAAGTTAAGAGGTAAAGCTAGATTTCTCCCTAGCCCATGTGAAAGCTAACCAGTGTCATACACATAGTGAGTTAGACACCAGCATGGTCTGCAGAGTGGATTCCAGGACCGCCAGGGCTACACAGAGAATCCCTCTATCAAAAAACATTTTTTTTGTTGTTGTTTTGTTTTGTTTGTTTGTTTTCGAGACAGGGTTGGTTTCTCTGTGTACCCCTGGCTGTCCTTGAACTCTCTTTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTTCCAAGTTCTGGGATTACAGGCATGCACCACCACTGCCCAGCTCAAAAAACATTTTTAATAATGAATGAATTACTGACAAAAATTTTGTGCTGCTTAGTTGATTATTAGGTAAAGACACTTGTCCCACAACTGATGGCATTAATTTAGTTCTGGGACCCATATGGTGCAATGAAAAAATTAACTTGCGGCCTGGAGAGATGGTTCAGCGGTTAAGAGCACCGACTGCTTTTCCAGAGGTCCTGAGTTCAATTTCCAGCAACCACATGGTGGCTTACAACCATCTGCAATGGGTTCTGATGCCCTCTTTTGGTGTATCTGAAGACAGTGACTGTGTGCTTATATAAATAAAAATAAATACATCTTTAAAAAAAGAAAAAATTAACTTGCACAAACTGTTCTCTAATCTAAGCACATAGCCAATATATTAATGGTTATAACAATGTACAGTACTATGGTTTGAGATACAAGTATACTGGAAAACCTATCAATAGAGGGTTTTTGTTTTGCTTTGCTGGAATAGAAAGAACCAAAGGCATCATGCATATTATGCACGGCCTGTTTTTGTTTTTGTAGCTCTGGCTGTCCTAGAACTCTCATCTATTTGCCTCTGCCTCCCAGGACCAGGATTAAAGGCGTCCGCCACCATGCCTGGCTAAGCATAGACTCCAGTTCATCTGTTGCCAACTCCAAAACTTTATTTCAAAGCATTTTAGATATACCTGATTTCATTGTTTTTAGAGTAGTTTATGTTTGTTTATTGTTATGTGGAAAGTTGAGTTGATTGGTATAGATTAGGGTGTAGAGAGTATTTGGTAAGCATATAGGAGACCTAGCACTGCAAAACAAACAAACAAAAAACCCAAACAAACCATACAGACCTTAAACAACTTTATATATTCTTTAAAAAGATTTATTTACTACATGTATATGAGTAACAGCAGAAGAGGGAGTCAGATCTCCTTATATACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGTTCTTAACTGCTGAGCCATCTCTCCAGTCCCCTTTATATTGGTTTTGTAAGAGGATATTTTGTTTGAAATTGGTTACATTGTGTGATATCAGATGTTTTCTATTGCATTGTGCTTTCGAACTTTGAGAAAGGGTCTCTAATTGAACTGGAATCTTGTCAGCCTTCTAGTTCCTAGGACTGGTCTGTTTCCACATCAAGTGGTGGAATTATGGGTATGCATAGCCATACCTAGTTTTTTTTATGTGGGTGGTATTGGAGGGTCTGATCTTATTTCCAGTCCTTATTGCTTGCACAAGCTCTTTACCGACTGAACTATCTCCTCAGTACCTTGATTCTACTTTTAAAAAATTTTTGGTAATAGGGCCGGGTGGTGGTGGCGCATGTCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGCGTTTGAGGCCAGATTGGCCTACAGAGTGAGTTCCAGGACAGCCAGGGTTATACAGAGAAACCCTGTCTCAAAAAAACCAAAAACCAAACCAAAACAAAATATTTGGTAATAGGATTAGAATGTTTGGTTTCATGCATGCTAGACAAGTGCTTTACTAAGCTGTGTTTCTAAACCAGATGGAAGGAAGGTCAGTGTGTTGCTTTTTGGGGCTGGAGAGATGGCTCTTCCGAAGGTCCTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCTTAATGAGATCTGACTCCCTCTTCTGGAGTGTCTGAAGACAGCTACAGTGTACTTACATATAATAAAAATAAAAAAAAAAAGAAAAAGGAAAAAGAAATATGTTCAGAAAAGCCCTTTAAAAAAAAATAAATAAAGGTGTTGCTTTTTTCCGTACCCTTGCTGTGAAGAAAAATAAGTTTATAGCTGCTTCTGAAATTCCTTTTTCTGTTTTGTGAGCAAAATTCCCAGTCCTGTTTTAGGCCAATAGTCCCCCTAGTTACCTTACAGCTGGTGTTTCCTGCTAGTCAGTGTGGCTCTCTTATTGGAAAAGGTGGTTATAGTTCTGTGTCTAATGGCCTGTGTCTGTACTGGCCTGTATCTGCAGATTTTTTTTTTTCTTGGTTTTTCCAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGACTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAATGCTGGGATTAAAGGCATGTGCCACCATGCCCGGCATAGATCTTTTTTTTTCCTTCTCTTTGTGAGTGCTGAACTATAAGCAATGCTTATATATGCTTATATATGCTTATATTTGGGTGCAAATTGTGATCTTCATAGTTTGGTATGGTTATGGTACATGCATGTCCAAGAGTAAGTGATTATTTTATGGAAGGCTTTCAAGTATAGATATGCTATTTATCCTTTTGGTGTTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGTACATGCATGTCCAAGAGT
59.69
GTCAACTGAGGGTATATAGCCC
57.46
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTACATGCATGTCCAAGAGT
58.01
AGTCAACTGAGGGTATATAGCCC
58.84
180
PCR template sequence:
ATAGTTTGGTATGGTTATGGTACATGCATGTCCAAGAGTAAGTGATTATTTTATGGAAGGCTTTCAAGTATAGATATGCTATTTATCCTTTTGGTGTTCTGTTTGTTGTACCTTTATGATTGCCTCCTCCTCCCATACCAGGCAATAAAAAAAATAAAGTTCATGTTAAGTAATTGGGCTATATACCCTCAGTTGACTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
38
Interacting miRNAs (#binding sites)
mmu-miR-709(3), mmu-miR-339-5p(3), mmu-miR-3087-3p(3), mmu-miR-3470b(3), mmu-miR-15a-5p(2), mmu-miR-200a-3p(2), mmu-miR-141-3p(2), mmu-miR-15b-5p(2), mmu-miR-298-5p(2), mmu-miR-9-5p(1), mmu-miR-134-5p(1), mmu-miR-16-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-322-5p(1), mmu-miR-148a-3p(1), mmu-miR-216a-5p(1), mmu-miR-101b-3p(1), mmu-miR-25-3p(1), mmu-miR-138-5p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-30b-5p(1), mmu-miR-434-3p(1), mmu-miR-363-3p(1), mmu-miR-199b-3p(1), mmu-miR-182-5p(1), mmu-miR-199a-3p(1), mmu-miR-382-5p(1), mmu-miR-183-5p(1), mmu-miR-541-5p(1), mmu-miR-224-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-5101(1), mmu-miR-539-5p(1), mmu-miR-3065-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTTGGTGTTCTGTTTGTTGTACCT
siRNA sets
GTACAACAAACAGAACACC, TACAACAAACAGAACACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.871321923
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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