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mmu_ciDesi2_1606
Basic information of circular RNA
PanCircBase ID:
mmu_ciDesi2_1606
mm39_Chr. Position ID:
chr1|178070271|178071877|+
Gene name:
Desi2
Transcript:
ENSMUST00000161075.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
1606
Exon/intron sizes in nt:
1606
Flanking exon/introns:
chr1:178070271-178071906
Splice length:
1606
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAGGAGGGTAATTTCTATTACACTGTAGTAGGCGGCAGAGCTTGTTTGGGGTATAAAGAATTCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTATACAGAGAAACCCTGTCTCGAAAAACCAAAAAAATAAAATAAAAAATAAAAATTTAGAAAATTGGGCTGAGGGCTGGTGAGATGGCTCAGTGGGTTAGAGCACCCGACTGCTCTTCCGAAGGTGCAGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCTTAACAAGATCTGACCCCCTCTTCTGGAGTGTCTGAAGACAGCTACAATGTACTTACATATAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAAAAGAAAATTGGGCTGAAAAGATGGCTCAGAGGTTAAAAGCACTAACTGCTCTACCAGAGATCAATTCCCAGTAACCACATGGTAGCTTATAACCATCTGTCATGGGATCTGATGCCCTCATCTGGGGTGTCTGAAGACAGCACCAATATACTCAACATATATAAAAATAAATAAATCTTCAAAAAAATTTAGAAAATTAAATATCTTAAATTTGGTTTAATGACTGATACTTTGTTTTTAAATTAAATTGAACTGAGTTATATAAAAATGGAAACTCAAATAATGTCTGAAAAAGCTTGTCTTACTTTTGTTCAGGATCTCTAAGTTGTTTTTTGTCTGCTTTTCAAATATAGTTGTCTTTGTTTAGCTTACATTCTGCCTTAGGAAACCCCTTGCCTAATGATCTCCTGCCTAGGCTCCCTATTTCAGAGGGAGAATAGACAAGGTGGAATTTTTATTATGACCTACTATAAAATCTCTTTCCCCAATGAAAGAAACACTTGTAAATTCAAAATAACTGAACTGTTTATCCTGGAAACTACTATCAATAGCATCAGTGTCGTGGAAACCCTGAACCAACAGGGTGTCCTGGGCCTTTCCCTCTCTCAGTCAGTCTTCTTATTCCTTAATTGTTACGTCTAAAATGATGTTTAGAGTCTTCATTTCAGGAAACTTTAAAGGAACTTCTGGGTCTATACTAATGAATTTTCCCAGTGTAAAACAGATAATAAATTCAGAATAGGGCTACAACACTTCTGAGTGCATAGCTCTCAAAACTCGGCACTGAATTAAAGCATTTGTATATAATAATGCCAGATAAAATGGTACAAACTGTGCTAAATAAAATGATTTTCTAATAATTTTTAGATTTGTTTACAACTAGCTTATATCTAAAATTCTGCCTTTTATTGAGAAATATCTGCTATATTTTCCAGGAAACATATTGAAGTGTTTTATTTGATGTTTTGAATGATGTTTTAAAATGTGGTCTGTCTCACTGCAGCACAAGAACAATTACTGCCAAAGATTTTTTCTTCATGAAAATATGGCTAACCCCAGTATTTAGCAGGGATATTTTTAGCTTTGAATATGATTCTCTAATATGTTTCATAAAGCAAAATAGAAACTAAAATCATTGAAATTTTTAAGTAAGCAAGTGTTTAATTATGCTTATTATAAATAAAATATATGAGCAAAACTCACACAGCTTTGTTTTGTTTATTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTAAGCAAGTGTTTAATTATGCT
55.1
GCTGTCCTGGAACTCACTCT
59.03
177
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTAAGCAAGTGTTTAATTATGCT
55.1
TCACTCTGTAGACCAGGCTGA
59.92
164
PCR template sequence:
AACTAAAATCATTGAAATTTTTAAGTAAGCAAGTGTTTAATTATGCTTATTATAAATAAAATATATGAGCAAAACTCACACAGCTTTGTTTTGTTTATTTGTAAGTAGGAGGGTAATTTCTATTACACTGTAGTAGGCGGCAGAGCTTGTTTGGGGTATAAAGAATTCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-200c-3p(1), mmu-miR-33-5p(1), mmu-miR-320-3p(1), mmu-miR-10a-5p(1), mmu-miR-494-3p(1), mmu-miR-541-5p(1), mmu-miR-410-3p(1), mmu-miR-3087-3p(1), mmu-miR-3470b(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTTGTTTATTTGTAAGTAGGAGGG
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
0.868181978
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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