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mmu_circPtprt_1041
Basic information of circular RNA
PanCircBase ID:
mmu_circPtprt_1041
mm39_Chr. Position ID:
chr2|161498061|161743477|-
Gene name:
Ptprt
Transcript:
ENSMUST00000109443.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
16,15,14,13,12,11,10,9
Exon/intron offsets:
0,30927,41832,76737,110082,154408,155793,245306
Genomic length:
245416
Exon/intron sizes in nt:
1,49,30,13,63,72,74,10,00,00,000
Flanking exon/introns:
chr2:161449368-161498061|chr2:161743477-161769401
Splice length:
1041
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTCCAGGAGCTGTTCCTCTCGAGTCCATCCAAGGGGGTCCCTTTGAGGAGAAGATCTACATCCAGTGGAAACCTCCCAATGAGACCAATGGGGTCATCACACTCTATGAGATTAACTACAAGGCTGTGGGCTCACTGGATCCAAGTGCTGACCTCTCCAGCCAGAGGGGAAAGGTGTTCAAACTCCGGAATGAAACCCACCACCTCTTTGTGGGTCTGTACCCTGGGACTACCTACTCTTTCACCATCAAGGCCAGCACAGCCAAGGGCTTTGGACCCCCAGTCACTACTCGGATTGCCACCAAGATTTCAGCTCCATCAATGCCTGAATATGACGCAGATACCCCACTCAATGAAACAGATACAACCATCACGGTGATGCTCAAACCCGCCCAGTCCAGGGGAGCCCCAGTCAGTGTTTACCAGCTGGTTGTCAAGGAGGAGCGACTCCAGAAGTCTCGGAGAGCAGCTGACATCATTGAGTGTTTCTCAGTACCTGTGAGCTACCGGAACGCCTCCAACCTCGATTCGCTACACTACTTTGCTGCTGAGCTGAAGCCCTCCAACCTGCCTGTCACCCAGCCATTTACAGTGGGAGACAACAAGACCTACAATGGCTACTGGAACCCTCCTCTCTCCCCATTGAAGAGCTACAGCATCTACTTCCAGGCCCTCAGCAAAGCAAATGGAGAGACAAAAATCAACTGTGTGCGTCTGGCTACAAAAGGTGCTTCCACTCAGAATTCTAACACTGTGGAGCCGGAGAAGCAGGTCGACAACACGGTGAAGATGGCTGGCGTGATTGCTGGCCTCCTCATGTTCATCATCATTCTCCTGGGGGTGATGCTGACCATCAAAAGGAGAAGAAATGCTTATTCGTACTCCTATTACTTGAAGCTGGCTAAGAAGCAGAAGGAGACCCAGAGTGGAGCCCAGAGGGAGATGGGTCCTGTGGCCTCGACTGACAAGCCTACCGCCAAGCTCGGCACCAACCGCAATGATGAAGGCTTCTCCTCCAGCTCTCAGGATGTTAATGGATTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCGACTGACAAGCCTACC
59.83
CTTCTCCTCAAAGGGACCCC
59.38
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCGACTGACAAGCCTACC
59.83
TGGGAGGTTTCCACTGGATG
59.3
165
PCR template sequence:
ATGGGTCCTGTGGCCTCGACTGACAAGCCTACCGCCAAGCTCGGCACCAACCGCAATGATGAAGGCTTCTCCTCCAGCTCTCAGGATGTTAATGGATTCATTCCAGGAGCTGTTCCTCTCGAGTCCATCCAAGGGGGTCCCTTTGAGGAGAAGATCTACATCCAGTGGAAACCTCCCAATGAGACCAATGGGGTCATCAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
18
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(2), mmu-miR-134-5p(1), mmu-miR-15a-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-181a-5p(1), mmu-miR-30e-5p(1), mmu-miR-26a-5p(1), mmu-miR-30a-5p(1), mmu-miR-196a-5p(1), mmu-miR-185-5p(1), mmu-miR-181b-5p(1), mmu-miR-30d-5p(1), mmu-miR-136-5p(1), mmu-miR-26b-5p(1), mmu-miR-207(1), mmu-miR-697(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTAATGGATTCATTCCAGGAGCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTPRT_1041_ORF_1
1.21
0.418703731
0.999988559
1761
ORF sequence:
ATGCCTGAATATGACGCAGATACCCCACTCAATGAAACAGATACAACCATCACGGTGATGCTCAAACCCGCCCAGTCCAGGGGAGCCCCAGTCAGTGTTTACCAGCTGGTTGTCAAGGAGGAGCGACTCCAGAAGTCTCGGAGAGCAGCTGACATCATTGAGTGTTTCTCAGTACCTGTGAGCTACCGGAACGCCTCCAACCTCGATTCGCTACACTACTTTGCTGCTGAGCTGAAGCCCTCCAACCTGCCTGTCACCCAGCCATTTACAGTGGGAGACAACAAGACCTACAATGGCTACTGGAACCCTCCTCTCTCCCCATTGAAGAGCTACAGCATCTACTTCCAGGCCCTCAGCAAAGCAAATGGAGAGACAAAAATCAACTGTGTGCGTCTGGCTACAAAAGGTGCTTCCACTCAGAATTCTAACACTGTGGAGCCGGAGAAGCAGGTCGACAACACGGTGAAGATGGCTGGCGTGATTGCTGGCCTCCTCATGTTCATCATCATTCTCCTGGGGGTGATGCTGACCATCAAAAGGAGAAGAAATGCTTATTCGTACTCCTATTACTTGAAGCTGGCTAAGAAGCAGAAGGAGACCCAGAGTGGAGCCCAGAGGGAGATGGGTCCTGTGGCCTCGACTGACAAGCCTACCGCCAAGCTCGGCACCAACCGCAATGATGAAGGCTTCTCCTCCAGCTCTCAGGATGTTAATGGATTCATTCCAGGAGCTGTTCCTCTCGAGTCCATCCAAGGGGGTCCCTTTGAGGAGAAGATCTACATCCAGTGGAAACCTCCCAATGAGACCAATGGGGTCATCACACTCTATGAGATTAACTACAAGGCTGTGGGCTCACTGGATCCAAGTGCTGACCTCTCCAGCCAGAGGGGAAAGGTGTTCAAACTCCGGAATGAAACCCACCACCTCTTTGTGGGTCTGTACCCTGGGACTACCTACTCTTTCACCATCAAGGCCAGCACAGCCAAGGGCTTTGGACCCCCAGTCACTACTCGGATTGCCACCAAGATTTCAGCTCCATCAATGCCTGAATATGACGCAGATACCCCACTCAATGAAACAGATACAACCATCACGGTGATGCTCAAACCCGCCCAGTCCAGGGGAGCCCCAGTCAGTGTTTACCAGCTGGTTGTCAAGGAGGAGCGACTCCAGAAGTCTCGGAGAGCAGCTGACATCATTGAGTGTTTCTCAGTACCTGTGAGCTACCGGAACGCCTCCAACCTCGATTCGCTACACTACTTTGCTGCTGAGCTGAAGCCCTCCAACCTGCCTGTCACCCAGCCATTTACAGTGGGAGACAACAAGACCTACAATGGCTACTGGAACCCTCCTCTCTCCCCATTGAAGAGCTACAGCATCTACTTCCAGGCCCTCAGCAAAGCAAATGGAGAGACAAAAATCAACTGTGTGCGTCTGGCTACAAAAGGTGCTTCCACTCAGAATTCTAACACTGTGGAGCCGGAGAAGCAGGTCGACAACACGGTGAAGATGGCTGGCGTGATTGCTGGCCTCCTCATGTTCATCATCATTCTCCTGGGGGTGATGCTGACCATCAAAAGGAGAAGAAATGCTTATTCGTACTCCTATTACTTGAAGCTGGCTAAGAAGCAGAAGGAGACCCAGAGTGGAGCCCAGAGGGAGATGGGTCCTGTGGCCTCGACTGACAAGCCTACCGCCAAGCTCGGCACCAACCGCAATGATGAAGGCTTCTCCTCCAGCTCTCAGGATGTTAATGGATTC
Peptide sequence:
MPEYDADTPLNETDTTITVMLKPAQSRGAPVSVYQLVVKEERLQKSRRAADIIECFSVPVSYRNASNLDSLHYFAAELKPSNLPVTQPFTVGDNKTYNGYWNPPLSPLKSYSIYFQALSKANGETKINCVRLATKGASTQNSNTVEPEKQVDNTVKMAGVIAGLLMFIIILLGVMLTIKRRRNAYSYSYYLKLAKKQKETQSGAQREMGPVASTDKPTAKLGTNRNDEGFSSSSQDVNGFIPGAVPLESIQGGPFEEKIYIQWKPPNETNGVITLYEINYKAVGSLDPSADLSSQRGKVFKLRNETHHLFVGLYPGTTYSFTIKASTAKGFGPPVTTRIATKISAPSMPEYDADTPLNETDTTITVMLKPAQSRGAPVSVYQLVVKEERLQKSRRAADIIECFSVPVSYRNASNLDSLHYFAAELKPSNLPVTQPFTVGDNKTYNGYWNPPLSPLKSYSIYFQALSKANGETKINCVRLATKGASTQNSNTVEPEKQVDNTVKMAGVIAGLLMFIIILLGVMLTIKRRRNAYSYSYYLKLAKKQKETQSGAQREMGPVASTDKPTAKLGTNRNDEGFSSSSQDVNGF
IRESfinder result
IRESfinder score
0.49298011
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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