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mmu_circDdc_209
Basic information of circular RNA
PanCircBase ID:
mmu_circDdc_209
mm39_Chr. Position ID:
chr11|11830441|11830650|-
Gene name:
Ddc
Transcript:
ENSMUST00000066237.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
209
Exon/intron sizes in nt:
209
Flanking exon/introns:
chr11:11826358-11830441|chr11:11830650-11848007
Splice length:
209
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTTTCAACATGGATTCCCGTGAATTCCGGAGGAGAGGCAAGGAGATGGTGGATTATATAGCTGACTATCTGGATGGCATTGAGGGTCGTCCAGTGTACCCTGATGTGGAGCCTGGCTATCTTCGGCCCCTGATCCCTGCCACTGCCCCCCAGGAGCCAGAAACATACGAGGACATAATCAAAGACATCGAGAAGATAATCATGCCAGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTATCTTCGGCCCCTGATC
60.04
ACCATCTCCTTGCCTCTCCT
59.96
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTATCTTCGGCCCCTGATC
60.04
CACCATCTCCTTGCCTCTCC
59.82
145
PCR template sequence:
GCCTGGCTATCTTCGGCCCCTGATCCCTGCCACTGCCCCCCAGGAGCCAGAAACATACGAGGACATAATCAAAGACATCGAGAAGATAATCATGCCAGGGTTTTCAACATGGATTCCCGTGAATTCCGGAGGAGAGGCAAGGAGATGGTGGATTATATAGCTGACTATCTGGATGGCATTGAGGGTCGTCCAGTGTACCC
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-9-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AATCATGCCAGGGTTTTCAACATGGA
siRNA sets
GTTGAAAACCCTGGCATGA, TTGAAAACCCTGGCATGAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDDC_209_ORF_1
0.9256
0.279005228
0.375797106
261
ORF sequence:
ATGGATTCCCGTGAATTCCGGAGGAGAGGCAAGGAGATGGTGGATTATATAGCTGACTATCTGGATGGCATTGAGGGTCGTCCAGTGTACCCTGATGTGGAGCCTGGCTATCTTCGGCCCCTGATCCCTGCCACTGCCCCCCAGGAGCCAGAAACATACGAGGACATAATCAAAGACATCGAGAAGATAATCATGCCAGGGTTTTCAACATGGATTCCCGTGAATTCCGGAGGAGAGGCAAGGAGATGGTGGATTATATAG
Peptide sequence:
MDSREFRRRGKEMVDYIADYLDGIEGRPVYPDVEPGYLRPLIPATAPQEPETYEDIIKDIEKIIMPGFSTWIPVNSGGEARRWWII
IRESfinder result
IRESfinder score
0.257066809
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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