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mmu_circ5730522E02Rik_345
Basic information of circular RNA
PanCircBase ID:
mmu_circ5730522E02Rik_345
mm39_Chr. Position ID:
chr11|25569509|25602068|-
Gene name:
5730522E02Rik
Transcript:
ENSMUST00000125773.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,28502,32426
Genomic length:
32559
Exon/intron sizes in nt:
6,31,49,133
Flanking exon/introns:
chr11:25567872-25569509|chr11:25602068-25936750
Splice length:
345
Other database IDs:
circAtlas: mmu-5730522E02Rik_0032
Human Ortholog IDs:
Mature spliced Sequence:
GCTCCGTTAGTGATATGGGCTGCAGAAAACCCTGCCAGAAGACAGGATGTTCAAGAGTAACATCTCAGTTGCCGTCCTTCTCTGCTGGGAAATGCTCCTGGGACAGCATTCTATCTTGTCTGGAATGTTCAAGTATCTCACTGTGTCCTGGCTGTCCTGGAATTTGCCATGTAGAAGAGAATGGCCTGAAACTCACAGAGATCAATTCCCCTGCCTCTGCCCCGACTCTCCAAATACTGAGATTAAAGGTGTGTGGTTCCACATCTGGCCTCAAAGTGTTATGGCTGCTGGAGGCACTCCATAGTGATTTCAGAGGATCTCTTTTCTAAACATTCCTGTCCCGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTTCCACATCTGGCCTCAA
59.96
CAGAGAAGGACGGCAACTGA
59.68
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGTTATGGCTGCTGGAGG
59.75
GGAGCATTTCCCAGCAGAGA
59.75
169
PCR template sequence:
AAGGTGTGTGGTTCCACATCTGGCCTCAAAGTGTTATGGCTGCTGGAGGCACTCCATAGTGATTTCAGAGGATCTCTTTTCTAAACATTCCTGTCCCGAAGCTCCGTTAGTGATATGGGCTGCAGAAAACCCTGCCAGAAGACAGGATGTTCAAGAGTAACATCTCAGTTGCCGTCCTTCTCTGCTGGGAAATGCTCCTG
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-298-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCTGTCCCGAAGCTCCGTTAGTGA
siRNA sets
ACGGAGCTTCGGGACAGGA, TAACGGAGCTTCGGGACAG, ACTAACGGAGCTTCGGGAC
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
0.746399601
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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