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mmu_circRpn2_677
Basic information of circular RNA
PanCircBase ID:
mmu_circRpn2_677
mm39_Chr. Position ID:
chr2|157125503|157137308|+
Gene name:
Rpn2
Transcript:
ENSMUST00000116380.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,5944,6953,10569,11670
Genomic length:
11805
Exon/intron sizes in nt:
19,49,61,76,76,135
Flanking exon/introns:
chr2:157121255-157125503|chr2:157137308-157139301
Splice length:
677
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTCAAGCGCTGTCTTCCTGTTGGCCCTGACAATCACTGCCAGCGTCCAGGCTCTGACCCCCACCCACTACCTCACCAAGCAGGATGTGGAAAGGCTGAAGGCCTCACTGGACCGCCCCTTCACAGATTTGGAGTCTGCCTTCTACTCCATCGTGGGACTCAGCAGCCTTGGGGTACAGGTGCCAGATGTCAAGAAAGCGTGTACCTTCATCAAGTCCAACCTTGATCCCAGCAACGTGGATTCTCTCTTCTATGCAGCCCAGTCCAGCCAGGTCCTCTCAGGCTGTGAGATATCTGTTTCAAATGAGACCAAAGAGCTCCTGCTGGCAGCAGTGAGTGAAGACTCCCCCATTGCCCAGATCTACCATGCAGTTGCAGCACTCAGCGGGTTTGGGCTTCCCTTGGCATCCAATGAAGCCCTCGGTGCCCTTACCGCTCGCCTCGGCAAGGAAGAGACTGTGCTAGCAACGGTCCAGGCTCTGCAGACAGCGTCCCACCTCTCCCAGCAGGCTGACCTGAGGAACATTGTAGAGGAGATTGAGGACCTTGTTGCTCGGCTGGATGAACTAGGGGGTGTGTATCTGCAGTTTGAGGAAGGACTGGAGCTCACGGCGCTGTTTGTTGCTGCCACCTACAAGCTCATGGACCACGTGGGGACCGAACCGTCCATGAAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCACCTACAAGCTCATGG
60.04
CACATCCTGCTTGGTGAGGT
59.96
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGGAAGGACTGGAGCTCA
59.88
CTGCTTGGTGAGGTAGTGGG
60.04
171
PCR template sequence:
GTATCTGCAGTTTGAGGAAGGACTGGAGCTCACGGCGCTGTTTGTTGCTGCCACCTACAAGCTCATGGACCACGTGGGGACCGAACCGTCCATGAAGGAGGTTCAAGCGCTGTCTTCCTGTTGGCCCTGACAATCACTGCCAGCGTCCAGGCTCTGACCCCCACCCACTACCTCACCAAGCAGGATGTGGAAAGGCTGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-452-3p(2), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-miR-34c-5p(1), mmu-let-7c-5p(1), mmu-miR-7a-5p(1), mmu-miR-181b-5p(1), mmu-miR-495-3p(1), mmu-let-7d-5p(1), mmu-miR-370-3p(1), mmu-miR-98-5p(1), mmu-miR-1199-5p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTCCATGAAGGAGGTTCAAGCGCTGT
siRNA sets
CTTGAACCTCCTTCATGGA
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
0.48388798
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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