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mmu_ciDnajc10_499
Basic information of circular RNA
PanCircBase ID:
mmu_ciDnajc10_499
mm39_Chr. Position ID:
chr2|80176989|80177488|+
Gene name:
Dnajc10
Transcript:
ENSMUST00000028392.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
18
Exon/intron offsets:
0
Genomic length:
499
Exon/intron sizes in nt:
499
Flanking exon/introns:
chr2:80176989-80177687
Splice length:
499
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTATTCCATCATAATCACTTGGTTGTACGGTTAACACGTAAGTTAGGCCAGCAGATATGTAGTGGGAGCCACCACCGGAGGCTCCCTCAGAAGACGAGGGAGCTGGACAGTAAAACTAGTTACGAAGTTCCAGTCAAGAAGCTGTGAGAGACAGAACTGGTGTTTAAGTCCTCAGTTGGCCCTAAGTCCAGGCCTGGCCTTGCCTCCATTGTTCATAGCAGTCTTTATACTTAGTGGGGGTGGGAATCACACCCTCCTACCACTGCTGAGAAAGAACTAACCCATCAGACTTACCGCTCACCTGCTAAGGTTGGGGGCAGTGATTTGAACCCAGGACTGTCCTGGTATCCACCCATTCTACACTATACAGGTTTTAAAAAGAAACAAAACAATTGTAATTAAGTGAAAATTGAGCCATGGGTTTCTCTGTAAAAGCTAAAAGAGTCTACTATGGGGAAATCACAAAAAGCAAGTATAGTCCTGAGTAGTTAAGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGCCATGGGTTTCTCTGT
58.93
TGCTGGCCTAACTTACGTGT
59.32
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGCCATGGGTTTCTCTGT
59.57
TGCTGGCCTAACTTACGTGT
59.32
143
PCR template sequence:
TAATTAAGTGAAAATTGAGCCATGGGTTTCTCTGTAAAAGCTAAAAGAGTCTACTATGGGGAAATCACAAAAAGCAAGTATAGTCCTGAGTAGTTAAGGGGTAAGTATTCCATCATAATCACTTGGTTGTACGGTTAACACGTAAGTTAGGCCAGCAGATATGTAGTGGGAGCCACCACCGGAGGCTCCCTCAGAAGACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-324-3p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGTAGTTAAGGGGTAAGTATTCCAT
siRNA sets
ATACTTACCCCTTAACTAC
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
0.699395716
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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