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mmu_circCapn2_575
Basic information of circular RNA
PanCircBase ID:
mmu_circCapn2_575
mm39_Chr. Position ID:
chr1|182314108|182318600|-
Gene name:
Capn2
Transcript:
ENSMUST00000068505.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,8,7,6,5
Exon/intron offsets:
0,1171,2450,3421,4323
Genomic length:
4492
Exon/intron sizes in nt:
1,61,75,86,84,169
Flanking exon/introns:
chr1:182311937-182314108|chr1:182318600-182319626
Splice length:
575
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATCAATGGGTGCTATGAAGCACTCTCAGGGGGTGCCACCACGGAAGGCTTTGAAGACTTCACAGGAGGCATTGCTGAGTGGTATGAGCTGAGGAAGCCTCCTCCCAACTTGTTCAAGATCATCCAGAAGGCTTTGGAGAAAGGTTCTCTGCTTGGCTGCTCTATCGATATCACCAGCGCTGCAGATTCTGAGGCCGTTACGTACCAGAAGTTGGTGAAAGGACATGCGTACTCTGTCACCGGAGCCGAGGAGGTTGAAAGTTCAGGAAGCCTGCAGAAATTGATCCGCATCAGGAATCCCTGGGGACAAGTAGAGTGGACCGGGAAGTGGAATGACAATTGCCCCAGCTGGAACACGGTTGACCCAGAAGTAAGGGCAAATCTAACCGAACGGCAGGAGGACGGAGAATTCTGGATGTCCTTCAGTGACTTCCTGAGACACTACTCTCGCCTGGAGATCTGCAACCTGACCCCGGACACCCTCACCTGTGACTCCTATAAGAAGTGGAAACTCACCAAGATGGATGGGAACTGGAGGCGAGGCTCCACCGCAGGGGGCTGCAGGAATTACCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACACCCTCACCTGTGACTC
59.68
CTCAGCAATGCCTCCTGTGA
60.04
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATGGATGGGAACTGGAGGC
60.18
TACCACTCAGCAATGCCTCC
59.75
140
PCR template sequence:
GACACCCTCACCTGTGACTCCTATAAGAAGTGGAAACTCACCAAGATGGATGGGAACTGGAGGCGAGGCTCCACCGCAGGGGGCTGCAGGAATTACCCAAGATCAATGGGTGCTATGAAGCACTCTCAGGGGGTGCCACCACGGAAGGCTTTGAAGACTTCACAGGAGGCATTGCTGAGTGGTATGAGCTGAGGAAGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-541-5p(1), mmu-miR-224-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAATTACCCAAGATCAATGGGTGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCAPN2_575_ORF_1
1.0384
0.263518268
0.391022389
252
ORF sequence:
ATGTCCTTCAGTGACTTCCTGAGACACTACTCTCGCCTGGAGATCTGCAACCTGACCCCGGACACCCTCACCTGTGACTCCTATAAGAAGTGGAAACTCACCAAGATGGATGGGAACTGGAGGCGAGGCTCCACCGCAGGGGGCTGCAGGAATTACCCAAGATCAATGGGTGCTATGAAGCACTCTCAGGGGGTGCCACCACGGAAGGCTTTGAAGACTTCACAGGAGGCATTGCTGAGTGGTATGAGCTGA
Peptide sequence:
MSFSDFLRHYSRLEICNLTPDTLTCDSYKKWKLTKMDGNWRRGSTAGGCRNYPRSMGAMKHSQGVPPRKALKTSQEALLSGMS
IRESfinder result
IRESfinder score
0.414731563
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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