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mmu_ciPtpre_1540
Basic information of circular RNA
PanCircBase ID:
mmu_ciPtpre_1540
mm39_Chr. Position ID:
chr7|135272930|135274470|+
Gene name:
Ptpre
Transcript:
ENSMUST00000211140.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
1540
Exon/intron sizes in nt:
1540
Flanking exon/introns:
chr7:135272930-135274473
Splice length:
1540
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGCAGTGGGCATGTGGGCCTCATGCCCTGGACCACCTACCTTCGTACATCATGCTAGGGGGCAAGCGCCTCTGGGTGACTTGGAGCTGTGTCCGAAGCTAGGAAGAAAGGACTCTCCTGGGGGCACTCTGAGGGATCTCCATGGACCCATAGGGTCTCAAGTGGTACCTAGAATATAGCTCAAACGCAAGACACCAGAGCTTCTGTATAGGGAGGGTTCCCTGGGACCTGAAAAGCTTGCCTCAGATGAGACCTGGGACCTCACTAGCGCTCTCTGGAGACCCCTTCTCCCTTACACAGTGGGAAGTGAGTTGCATGGCCAAGAATATATACATAAAAAGAACTAAATCAGACCAAAGGTGAATTCTGCTGAGCCCTTGGAGTGTGGGGTGAGGGGTGGGGTGGGGAGAACTTGCCTTGGAAATTTCATAACACTTAGCCTGAGGTAGAGTCAATTCTAGTCTTCCATTGAGGACCAGGATAACTGAGGCAAAGACCCATAGTCAGCAGGAACCCACATCTGCCCCTGCTAGCAAGGCATGAAGAGGTATCTAGGCAAACACAGCTGTCGAAGCCTGTGGGATGCTCAGGCTTGAAGAGAGGGCAGTTCATGTCTCACACTGCTTTTTCATGCCCTCCGTGGAGCCGAGGCTTAGTAACTGCCCACCAAGTCGACAGCCCACCTCTTCTCCGGAAGCAGAGAGTTCTAGGCGGCTGGGCAATTCAGCCCCAGTCTCCATTACTTGGTTCTCTGTGACCTCAGTGTCTCCTTTGGCAGCTGCAGGTCTTATCTGGTTACCCTATCCTTGTTCTTAAATGCAGTATGTTTAGTGCTTATATTTGGGGATACATTATTACTGATGATTGGATAACGAAAAAGATAATTAGATTGTTTTCAGAGCATCCCCGAACCACATTATGAAGCTATTTGATAACGGAGGCTTCCCTAAGAGATGGCTTTATTAATATTCTTGGTCTGTGACTTAATTCCTTTTCCTGTTGCTGTGATAAAATACCTTGCCCAAAAGAAAAAAGAAAAGAAAAGAAAGAAAGAGTGAGAGAGAGAGAGTGAGAAAGAAAGAAAGAAAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGGAAGGAAGGAAGAAAGAAAGAAAGGAAGAAAGCAAGCAAGCTAGCCTGGCTCGGGGTTCAAGGGAACAGTCCACTGTGGTGGGGAAGTCAGGGCAGGGAAGCTTGAAGCCCCTGGGTCACATCATGTCCACAGTCAGGAAGCTGAGAGCAGTGAATGCAAGCGTGCGGCCACTCAGCTCACTTTCTCTGTTCTACACAGTCCAGGATTCCCTGGCCAGAGAATGGCCCTGCCCTCAATTAAGATGGGTCTTCACATCAATTAACTTAACCAGGATAGTCCCCCCCACCCCCGTTTATCCAGAGGCCCATCTCCTTGTGAGTCTAGATCTTGTCAAGTTCACAATTAACGTGGACCATCACAGTCTATAAGGCATGCTCATATCTACACTAACAAAGAAAATCCTGCTTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AACGTGGACCATCACAGTCT
58.95
TTCGGACACAGCTCCAAGTC
59.97
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AACGTGGACCATCACAGTCT
58.95
CAGCTCCAAGTCACCCAGAG
60.04
157
PCR template sequence:
TCCTTGTGAGTCTAGATCTTGTCAAGTTCACAATTAACGTGGACCATCACAGTCTATAAGGCATGCTCATATCTACACTAACAAAGAAAATCCTGCTTTGGTAAGGCAGTGGGCATGTGGGCCTCATGCCCTGGACCACCTACCTTCGTACATCATGCTAGGGGGCAAGCGCCTCTGGGTGACTTGGAGCTGTGTCCGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-7b-5p(1), mmu-miR-217-5p(1), mmu-miR-7a-5p(1), mmu-miR-324-5p(1), mmu-miR-139-5p(1), mmu-miR-181b-5p(1), mmu-miR-128-3p(1), mmu-miR-22-3p(1), mmu-miR-182-5p(1), mmu-miR-224-5p(1), mmu-miR-499-5p(1), mmu-miR-384-3p(1), mmu-miR-532-5p(1), mmu-miR-3087-3p(1), mmu-miR-181d-5p(1), mmu-miR-542-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAATCCTGCTTTGGTAAGGCAGTGGG
siRNA sets
NA
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
0.618982044
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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