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mmu_circDdc_374
Basic information of circular RNA
PanCircBase ID:
mmu_circDdc_374
mm39_Chr. Position ID:
chr11|11785741|11813794|-
Gene name:
Ddc
Transcript:
ENSMUST00000066237.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
9,8,7,6
Exon/intron offsets:
0,3656,10894,27909
Genomic length:
28053
Exon/intron sizes in nt:
68,95,67,144
Flanking exon/introns:
chr11:11779178-11785741|chr11:11813794-11814893
Splice length:
374
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCGCATTCCTCTGTAGAAAGAGCTGGGTTAATTGGTGGAATAAAGCTAAAAGCAGTCCCTTCGGATGGCAACTTTTCCATGAGAGCTTCTGCCCTTCGGGAAGCCCTGGAGCGGGACAAGGCAGCTGGCCTGATTCCATTCTTTGTGGTCGCTACACTGGGGACCACATCCTGCTGTTCTTTTGACAATCTCCTGGAAGTGGGTCCCATCTGCAACCAGGAGGGTGTGTGGCTGCACATTGACGCTGCTTACGCGGGCAGTGCCTTTATCTGTCCTGAATTCCGGTATCTTCTGAATGGTGTGGAGTTTGCAGATTCCTTTAACTTTAATCCCCACAAGTGGCTTTTGGTGAACTTTGACTGCTCTGCCATGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGTGGAGTTTGCAGATTCC
59.46
GGGCAGAAGCTCTCATGGAA
59.75
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAATGGTGTGGAGTTTGCAG
59.04
GGGCAGAAGCTCTCATGGAA
59.75
176
PCR template sequence:
CTGAATTCCGGTATCTTCTGAATGGTGTGGAGTTTGCAGATTCCTTTAACTTTAATCCCCACAAGTGGCTTTTGGTGAACTTTGACTGCTCTGCCATGTGGCGCATTCCTCTGTAGAAAGAGCTGGGTTAATTGGTGGAATAAAGCTAAAAGCAGTCCCTTCGGATGGCAACTTTTCCATGAGAGCTTCTGCCCTTCGGG
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-199a-5p(1), mmu-miR-503-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCTGCCATGTGGCGCATTCCTCTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDC_374_ORF_1
0.8611
0.224178745
0.379607394
312
ORF sequence:
ATGAGAGCTTCTGCCCTTCGGGAAGCCCTGGAGCGGGACAAGGCAGCTGGCCTGATTCCATTCTTTGTGGTCGCTACACTGGGGACCACATCCTGCTGTTCTTTTGACAATCTCCTGGAAGTGGGTCCCATCTGCAACCAGGAGGGTGTGTGGCTGCACATTGACGCTGCTTACGCGGGCAGTGCCTTTATCTGTCCTGAATTCCGGTATCTTCTGAATGGTGTGGAGTTTGCAGATTCCTTTAACTTTAATCCCCACAAGTGGCTTTTGGTGAACTTTGACTGCTCTGCCATGTGGCGCATTCCTCTGTAG
Peptide sequence:
MRASALREALERDKAAGLIPFFVVATLGTTSCCSFDNLLEVGPICNQEGVWLHIDAAYAGSAFICPEFRYLLNGVEFADSFNFNPHKWLLVNFDCSAMWRIPL
IRESfinder result
IRESfinder score
0.740495875
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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