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mmu_ciDdost_1010
Basic information of circular RNA
PanCircBase ID:
mmu_ciDdost_1010
mm39_Chr. Position ID:
chr4|138035640|138036650|+
Gene name:
Ddost
Transcript:
ENSMUST00000030538.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
1010
Exon/intron sizes in nt:
1010
Flanking exon/introns:
chr4:138035640-138036660
Splice length:
1010
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTCTGCCCTAGGAAGTTGCAAGTCTTTGCACCCGTTCCCATGGAGCTCAGAGAGCTTTGCATGCAGGAGATGCCAGCGTGGCACTGGCCGGGGAGGCAATGAGAGATGCAGTGGCCCTGGGACCCTTACGGGTGTGGTATGAATTTATAATCCTAGCAAGCCCGTATAAAAGACACACAGTCCAGGTGTCTTATTTACAAGCCGCGAGCCTAGACTGGGCAGATCTAACATTTTCCCCAGCTGTAGGTCCCTTGTTACTTGTTGCTTCTCCTGTCCTTGTGGTTCTGGGTCATGGAGGCTGCTTCCTCCTCTGTCTCACTGCCTGCAAACCCCTCAACTCAAATCTCCAGTCCCACTTTTCTCCCTCCCCTGCCCAATCACAGGCTCTAGCCTTTTACTGACCAGTGAACTTGTCGAGAAAGTTCACACGGCATCACTTGAGTCCCTGAGGATCTGTTCATTGGGGGGAACCACATCTTGAGGAACCAAAATTTGGTGTTAGAATCTAAGCAGCATCAGAAGAACCCACTATGGGGGAACCAGGAAGTCAGGCAGGCAGTGGGTGGAGTTAGTTTTGGATTCTGGTTTTGAAAGTTCCAAAGTTGCACAGCAGTAGGGAGAGAATTGTATCCTTAGTTCATGCACTGGTCCTTCAGCTCCAGCAGCGGACAGCTCAGGCCTGTTTGCAGCAGTGCTAGACTTTCATCTCAGTGGGTCACTTGGTGGGGTGTGAGGAGGGCAGGTGAGCTCAGGCCTGTCGAACGAAGCCAGTATTGGCTTTGGCTTTGCCAAGTTTGCTAAGAGGGTGTAGGTAGAACCAAGTTGTTAAATCTTTATATGAGGAGGGTGGCTGTCATTTAGCTCCACTACTCATCCAAGCCCTGGAAGTGGTGGCCTGCCTGCTGAAGGCTCAGGGCACCGTGGCTGACCAGGTGAGGGTGAGGTGTGAAGTTGTGGCCTGTGTTATCTGACCTGCCGACCAGGGCTCAGCCAGGCAATCTCTTGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGAGGGTGAGGTGTGAAG
59.96
TCCTGCATGCAAAGCTCTCT
59.67
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGAGGGTGAGGTGTGAAG
59.96
TCTCCTGCATGCAAAGCTCT
59.67
149
PCR template sequence:
AGGCTCAGGGCACCGTGGCTGACCAGGTGAGGGTGAGGTGTGAAGTTGTGGCCTGTGTTATCTGACCTGCCGACCAGGGCTCAGCCAGGCAATCTCTTGGGTAAGTCTGCCCTAGGAAGTTGCAAGTCTTTGCACCCGTTCCCATGGAGCTCAGAGAGCTTTGCATGCAGGAGATGCCAGCGTGGCACTGGCCGGGGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-34c-5p(1), mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-152-3p(1), mmu-miR-217-5p(1), mmu-miR-709(1), mmu-miR-143-3p(1), mmu-miR-214-3p(1), mmu-miR-125a-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-182-5p(1), mmu-miR-680(1), mmu-miR-29b-2-5p(1), mmu-miR-1199-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCAATCTCTTGGGTAAGTCTGCCCT
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
0.696465452
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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