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mmu_ciPrss53_1093
Basic information of circular RNA
PanCircBase ID:
mmu_ciPrss53_1093
mm39_Chr. Position ID:
chr7|127488937|127490030|-
Gene name:
Prss53
Transcript:
ENSMUST00000121394.3
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
1093
Exon/intron sizes in nt:
1093
Flanking exon/introns:
chr7:127488929-127490030
Splice length:
1093
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCCTTCAAGTATGAGGGACAGGGAGTGGCATTGTGTGTGTGTGTGGTGGTGGGGAGGCTCCTAAGCCTTCATCTGCCCCAGTAGACTGCAATTTGGTATGTAAGAGATCCTGAGGGGGCTACAGTCTCCCTGTGAATGTCCTTGGTGTGTGTCTTTTGGGGAGGGAGGTGTTCTTGGGGGTGAGGTGCTGAGGGGAGGTAACACAGAGCCTATTGTCAAAATGGCTGTGATTTTCCTGGGCCACGTTACAGCACTTTGGAAGAAGCTGTTAATATATTTAATCTTTACAGTAGTTCTTTAACTTGTGCTACTGTTCGATCTTGGTGAAGAAACAGAAGTACAGAAAAGCTAAATAATGTCCTTGAGACTACAGTCTAATGCCAGGGTTAGAAAGGGTCTGAGATCACTGTCTGAACGTGGATGGTGGATGTTGGGGGGGGGGGGTGTCTGTGTGTGCGTCTTGGTCTTGCCCTCTCTCTTATCCTCTACTTCCAGAAGGACCTCAGGCATGTTCTGGCCTCACTCACTGGAGGCTGTCCACACCAGCTCTGCCTCCGATGTACAGTAGACCTATTTGAGTGAGGCTGTGATGGGTTACAGGCATGACAGGGACCCACTGGAAAAGTAGACAGTTTGATTCATTAGGATGGGGTGGAGTGAGACTCACTTGGGGCCTCCCCCACTTAGGACATGACACAGACCTCTAATCTACCTTCTTAGGCTTCCACAGCTGAAGGGACAATTAGGCTAATGTTCTTCACATACACAGGCCACCTCTCTGACTCAGCGGTAAAGGCAGGAGTTAGGGGTTCGGAAGCCTGGAGGAGGGTTGGCCTACTCCCAAGGTAAACCCGAGGCCTTGTTCCTTGGGCCCAGGAGTGCTGAGCACAGCTGAGAGAATTAATGGCTGTGTACTCTGAATGAGCTCCAATAAAAGCTGCTTTTCCGCCTCATATAAATGTCTTCATTCTGGGAGGGGCTGGTGAGGTAGCCAGTCACAGATATGGACCCAGGGCCTGTCCTTCAATCCATCCCTCCACCCAACCTGGGCCAGGCAGTTACGGCACCCCCACAGCCTGTGTTTCTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACAGATATGGACCCAGGGC
59.89
GGGGCAGATGAAGGCTTAGG
60.18
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACAGATATGGACCCAGGGC
59.89
CCACACACACACACAATGCC
60.25
143
PCR template sequence:
TAGCCAGTCACAGATATGGACCCAGGGCCTGTCCTTCAATCCATCCCTCCACCCAACCTGGGCCAGGCAGTTACGGCACCCCCACAGCCTGTGTTTCTTTGTAAGTCCTTCAAGTATGAGGGACAGGGAGTGGCATTGTGTGTGTGTGTGGTGGTGGGGAGGCTCCTAAGCCTTCATCTGCCCCAGTAGACTGCAATTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-339-5p(2), mmu-miR-20b-5p(1), mmu-miR-134-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-let-7b-5p(1), mmu-miR-106b-5p(1), mmu-miR-709(1), mmu-miR-382-3p(1), mmu-miR-342-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGTGTTTCTTTGTAAGTCCTTCAA
siRNA sets
AAGGACTTACAAAGAAACA,TTGAAGGACTTACAAAGAA,GAAGGACTTACAAAGAAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPRSS53_1093_ORF_3
1.244
0.011114106
0.157136258
174
ORF sequence:
ATGGACCCAGGGCCTGTCCTTCAATCCATCCCTCCACCCAACCTGGGCCAGGCAGTTACGGCACCCCCACAGCCTGTGTTTCTTTGTAAGTCCTTCAAGTATGAGGGACAGGGAGTGGCATTGTGTGTGTGTGTGGTGGTGGGGAGGCTCCTAAGCCTTCATCTGCCCCAGTAG
Peptide sequence:
MDPGPVLQSIPPPNLGQAVTAPPQPVFLCKSFKYEGQGVALCVCVVVGRLLSLHLPQ
IRESfinder result
IRESfinder score
0.576289601
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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