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mmu_ciDdx18_1007
Basic information of circular RNA
PanCircBase ID:
mmu_ciDdx18_1007
mm39_Chr. Position ID:
chr1|121488002|121489009|-
Gene name:
Ddx18
Transcript:
ENSMUST00000001724.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1007
Exon/intron sizes in nt:
1007
Flanking exon/introns:
chr1:121488000-121489009
Splice length:
1007
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAGACGGCATCTGCATGGGGCTCACAGGGTAGTTAGAGGTCCGTGGTTGGTGATCTTGTAGGAAAAATAGTATCTTAATACCAGAATTTTACTATGGCCACATGAGGAATGTGGGCCTGTTGACTTCAGAAGTAGTTCTTTTCTGCTGGCTTCATACAGCACATTACCATAGCTCATAAACTAAAATTTAAATGCAGGGTCAGTAGTCTGGCCATGACCCTGTGCTTAGTGCAGTGTTGTGCTGAAATGATTGACATGAAGAAAAGCAAGTGTGGAAGCAAGAGTCAAGGGCATCCCTGAGACCTTGACCCCAGAGCTGCTGAGACTCGGCCTCAAAAAATAAACTAGGGCCCAGAGAGATGGCCCAGCAACTAAGAACACATACTGCTTTTGCAGAGACCCAGGTTTGGTTCCCATCACCCCACACCACACGGTCATCCATCACCTGTATGTAACTCTTAACCCTAGGGGAATCTACCCCTCTGGCCCCCTGAGGCAGCTTACTTAGTGTACAGACACACAAACACTTATTTAAAAATAAGTATACCTATTGCCTTTAAATATCTAATCTCTGATACTCTTGTGGACCGCAAACAAAGTGATGGCACGTCACCTGCGCTGTTTGTTTGTTCAGCCAGCTGTTGACAGGTGTGTGTGTATTGTTTGCGGCATGAGACTGCTAAAATTTCCCCGTGAACATTGACTACAAGTTGTAGGGTTATATAGCTCCTTTTCTTTTGAATAGTTTGAAGGAGGCATTGCTGGTGCCTGGAGAAGCCATAACTCCCATCACTCGGGTTTAATGTGCTTAAATTTTGTCCGTTTCACCTAAGCTATCATGTCTATAGACCTGAAATTCACATTATAACCTTACTCTTGGTGTATGTATCTCAGGGTATGTATACCAACAGCATATCCCCTCTTCCAGGACTCTCTTCCTAAAGTGTAATTGTGAAGCAGTTATGGGATTCTTTGGTAGGTTGGCAACCTTTGTGTCTTTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCATATCCCCTCTTCCAGG
59.65
AAGATCACCAACCACGGACC
59.96
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCATATCCCCTCTTCCAGG
59.65
TCACCAACCACGGACCTCTA
60.18
152
PCR template sequence:
TACCAACAGCATATCCCCTCTTCCAGGACTCTCTTCCTAAAGTGTAATTGTGAAGCAGTTATGGGATTCTTTGGTAGGTTGGCAACCTTTGTGTCTTTTTGTAAGTAGACGGCATCTGCATGGGGCTCACAGGGTAGTTAGAGGTCCGTGGTTGGTGATCTTGTAGGAAAAATAGTATCTTAATACCAGAATTTTACTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-141-3p(1), mmu-miR-326-3p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-495-3p(1), mmu-miR-125a-5p(1), mmu-miR-466d-3p(1), mmu-miR-1198-5p(1), mmu-miR-344d-3p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGTGTCTTTTTGTAAGTAGACGGC
siRNA sets
TACTTACAAAAAGACACAA
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
0.752231834
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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