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mmu_circPtgr2_321
Basic information of circular RNA
PanCircBase ID:
mmu_circPtgr2_321
mm39_Chr. Position ID:
chr12|84343001|84344976|+
Gene name:
Ptgr2
Transcript:
ENSMUST00000138733.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,1783
Genomic length:
1975
Exon/intron sizes in nt:
1,29,192
Flanking exon/introns:
chr12:84342109-84343001|chr12:84344976-84349010
Splice length:
321
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTCCTGACCACTTGACTAGACTGCGTCTTATGGGCAGATCTCACCCACTGAGCCCACCACTTTATATGCAGATTCCTCAGGAAACACTCTCTTCCCAGATATACTTAGAAACAACACTTTATGCATCAACGCTGTAAGATGAACGAGGACACTGGCACTGACTACTTGGCACCGTGGCAGCTGGCGCAGGTGGCTGATGGTGGAGGAATTGGAGTTGTAGAGGAGAGCAAGCACCAGAAGTTGACTAAAGGCGATTTTGTGACTTCGTTTTACTGGCCCTGGCAAACTAAGGCAATTCTAGATGGGAATGGCCTTGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAGCAAGCACCAGAAGT
59.96
TAAAGTGGTGGGCTCAGTGG
59.6
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAGCAAGCACCAGAAGT
59.96
ATAAAGTGGTGGGCTCAGTGG
60
165
PCR template sequence:
GGAGAGCAAGCACCAGAAGTTGACTAAAGGCGATTTTGTGACTTCGTTTTACTGGCCCTGGCAAACTAAGGCAATTCTAGATGGGAATGGCCTTGAAAAGCTCCTGACCACTTGACTAGACTGCGTCTTATGGGCAGATCTCACCCACTGAGCCCACCACTTTATATGCAGATTCCTCAGGAAACACTCTCTTCCCAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-22-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCCTTGAAAAGCTCCTGACCACTT
siRNA sets
CAGGAGCTTTTCAAGGCCA, AGTGGTCAGGAGCTTTTCA, GGTCAGGAGCTTTTCAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTGR2_321_ORF_1
0.9818
0.213857636
0.269092013
216
ORF sequence:
ATGCATCAACGCTGTAAGATGAACGAGGACACTGGCACTGACTACTTGGCACCGTGGCAGCTGGCGCAGGTGGCTGATGGTGGAGGAATTGGAGTTGTAGAGGAGAGCAAGCACCAGAAGTTGACTAAAGGCGATTTTGTGACTTCGTTTTACTGGCCCTGGCAAACTAAGGCAATTCTAGATGGGAATGGCCTTGAAAAGCTCCTGACCACTTGA
Peptide sequence:
MHQRCKMNEDTGTDYLAPWQLAQVADGGGIGVVEESKHQKLTKGDFVTSFYWPWQTKAILDGNGLEKLLTT
IRESfinder result
IRESfinder score
0.520605123
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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