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mmu_circPpp2r5a_394
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp2r5a_394
mm39_Chr. Position ID:
chr1|191086938|191090048|-
Gene name:
Ppp2r5a
Transcript:
ENSMUST00000067976.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,281,1592,2145,3050
Genomic length:
3110
Exon/intron sizes in nt:
120,51,54,109,60
Flanking exon/introns:
chr1:191086855-191086938|chr1:191090048-191091121
Splice length:
394
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTATATATGAAACGGAACATTTCAATGGTGTGGCTGAGCTCCTGGAAATATTGGGAAGTATCATCAATGGCTTTGCATTGCCACTGAAAGCAGAGCATAAGCAGTTTCTAATGAAGGTTCTTATTCCTATGCATACTGCAAAAGGATTGGCCTTGTTTCACGCACAGCTGGCGTACTGTGTTGTGCAGTTCCTGGAGAAAGACACAACGCTGACAGAGCCGGTGATCAGAGGACTGCTGAAATTTTGGCCAAAAACATGCAGTCAGAAAGAGGTGATGTTTTTAGGAGAAATTGAAGAGATCTTAGATGTCATTGAACCAACACAATTCAAAAAAATTGAAGAGCCGCTTTTTAAGCAGATATCCAAGTGCGTCTCCAGCTCTCATTTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAAGCAGATATCCAAGTGCGTCT
59.62
ATGCTCTGCTTTCAGTGGCA
60.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TAAGCAGATATCCAAGTGCGTC
58.28
ATGCTCTGCTTTCAGTGGCA
60.25
140
PCR template sequence:
TGAAGAGATCTTAGATGTCATTGAACCAACACAATTCAAAAAAATTGAAGAGCCGCTTTTTAAGCAGATATCCAAGTGCGTCTCCAGCTCTCATTTCCAGGTTTATATATGAAACGGAACATTTCAATGGTGTGGCTGAGCTCCTGGAAATATTGGGAAGTATCATCAATGGCTTTGCATTGCCACTGAAAGCAGAGCAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-3105-3p(2), mmu-miR-210-3p(1), mmu-miR-203-3p(1), mmu-miR-153-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTCATTTCCAGGTTTATATATGAA
siRNA sets
ATATAAACCTGGAAATGAG, TATAAACCTGGAAATGAGA, TATATAAACCTGGAAATGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP2R5A_394_ORF_1
0.8475
0.043634051
0.489187411
480
ORF sequence:
ATGTCATTGAACCAACACAATTCAAAAAAATTGAAGAGCCGCTTTTTAAGCAGATATCCAAGTGCGTCTCCAGCTCTCATTTCCAGGTTTATATATGAAACGGAACATTTCAATGGTGTGGCTGAGCTCCTGGAAATATTGGGAAGTATCATCAATGGCTTTGCATTGCCACTGAAAGCAGAGCATAAGCAGTTTCTAATGAAGGTTCTTATTCCTATGCATACTGCAAAAGGATTGGCCTTGTTTCACGCACAGCTGGCGTACTGTGTTGTGCAGTTCCTGGAGAAAGACACAACGCTGACAGAGCCGGTGATCAGAGGACTGCTGAAATTTTGGCCAAAAACATGCAGTCAGAAAGAGGTGATGTTTTTAGGAGAAATTGAAGAGATCTTAGATGTCATTGAACCAACACAATTCAAAAAAATTGAAGAGCCGCTTTTTAAGCAGATATCCAAGTGCGTCTCCAGCTCTCATTTCCAG
Peptide sequence:
MSLNQHNSKKLKSRFLSRYPSASPALISRFIYETEHFNGVAELLEILGSIINGFALPLKAEHKQFLMKVLIPMHTAKGLALFHAQLAYCVVQFLEKDTTLTEPVIRGLLKFWPKTCSQKEVMFLGEIEEILDVIEPTQFKKIEEPLFKQISKCVSSSHFQ
IRESfinder result
IRESfinder score
0.604725271
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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