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mmu_circDnmt1_354
Basic information of circular RNA
PanCircBase ID:
mmu_circDnmt1_354
mm39_Chr. Position ID:
chr9|20841420|20849442|-
Gene name:
Dnmt1
Transcript:
ENSMUST00000178110.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
11,10,9,8,7,6
Exon/intron offsets:
0,1990,4394,6418,7037,7946
Genomic length:
8022
Exon/intron sizes in nt:
41,85,41,79,32,76
Flanking exon/introns:
chr9:20840425-20841420|chr9:20849442-20851771
Splice length:
354
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13101, circAtlas: mmu-Dnmt1_0012
Human Ortholog IDs:
Mature spliced Sequence:
CCCCACTAAACGGAAACCCAAGGAAGAGTCGGAAGAGGGGAACTCGGCTGAGTCGGCTGCAGAGGAGAGAGACCAGGATAAGAAACGCAGAGTTGTAGACACAGAGAGTGGTGCTGCAGCTGCTGTGGAGAAACTGGAAGAGGTAACAGCGGGAACCCAGCTGGGTCCGGAAGAGCCATGTGAACAGGAAGATGACAACAGGAGTCTTCGACGTCACACCAGAGAGCTATCATTGAGGCGGAAATCAAAGGAGGATCCAGACAGAGAAGCAAGACCGGAAACTCACTTGGACGAGGACGAGGACGGAAAAAAGGATAAAAGAAGTTCCAGACCCAGGAGCCAGCCCAGAGATCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCGGAAACTCACTTGGACGA
59.97
TCCTGGTCTCTCTCCTCTGC
60.03
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGGACGAGGACGGAAAAA
60.04
TCCTGGTCTCTCTCCTCTGC
60.03
141
PCR template sequence:
ATCCAGACAGAGAAGCAAGACCGGAAACTCACTTGGACGAGGACGAGGACGGAAAAAAGGATAAAAGAAGTTCCAGACCCAGGAGCCAGCCCAGAGATCCCCCCACTAAACGGAAACCCAAGGAAGAGTCGGAAGAGGGGAACTCGGCTGAGTCGGCTGCAGAGGAGAGAGACCAGGATAAGAAACGCAGAGTTGTAGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-326-3p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCCAGAGATCCCCCCACTAAACGG
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
0.159885162
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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