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mmu_circDock11_541
Basic information of circular RNA
PanCircBase ID:
mmu_circDock11_541
mm39_Chr. Position ID:
chrX|35266318|35273103|+
Gene name:
Dock11
Transcript:
ENSMUST00000033419.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
26,27,28,29,30
Exon/intron offsets:
0,1335,3934,5408,6673
Genomic length:
6785
Exon/intron sizes in nt:
12,67,21,47,84,112
Flanking exon/introns:
chrX:35266232-35266318|chrX:35273103-35275284
Splice length:
541
Other database IDs:
circAtlas: mmu-Dock11_0019
Human Ortholog IDs:
Mature spliced Sequence:
TATAGCTTCAGACCTGAAAAACCAAGCACTCTTCAGGCCCAGTTGATACATGAAACCCTGGCTACGACTATGATAGCAATATTGAAACAGTCTGCAGATTTCCTAGCCATAAATAAACTTCTAAAGTACTCATGGTTTTTCTTTGAAATAATTGCAAAGTCGATGGCCACATACTTATTGGAAGAGAATAAAATTAAGCTCCCCAGGGGCCAAAGGTTTCCTGAGGCGTATCACCACGTCTTACATTCTCTGCTCCTTGCAATAATTCCCCATGTGACCATTCGCTATGCAGAGATTCCTGATGAGTCCCGAAATGGGAATTATAGCTTAGCCAGCTTTCTGAAGCGCTGCTTGACCCTGATGGACAGAGGATTTGTTTTCAATTTGATAAATGACTATATATCAGGATTTAGCCCTAAGGATCCTAAGGTTCTTGCTGAATACAAGTTTGAATTTCTCCAAACAATCTGCAATCATGAACATTACATTCCTCTGAACTTGCCAATGGCATTTGCAAAGCCTAAATTACAGAGAGTTCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAAACAATCTGCAATCATGAACA
59.99
TCGTAGCCAGGGTTTCATGT
59.02
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTCCAAACAATCTGCAATCATGA
58.99
TCGTAGCCAGGGTTTCATGT
59.02
153
PCR template sequence:
TACAAGTTTGAATTTCTCCAAACAATCTGCAATCATGAACATTACATTCCTCTGAACTTGCCAATGGCATTTGCAAAGCCTAAATTACAGAGAGTTCAAGTATAGCTTCAGACCTGAAAAACCAAGCACTCTTCAGGCCCAGTTGATACATGAAACCCTGGCTACGACTATGATAGCAATATTGAAACAGTCTGCAGATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-137-3p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-320-3p(1), mmu-miR-539-5p(1), mmu-miR-7a-1-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGAGAGTTCAAGTATAGCTTCAGAC
siRNA sets
AAGCTATACTTGAACTCTC, TGAAGCTATACTTGAACTC, GAAGCTATACTTGAACTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDOCK11_541_ORF_1
0.7713
-0.024105983
0.379789264
477
ORF sequence:
ATGATAGCAATATTGAAACAGTCTGCAGATTTCCTAGCCATAAATAAACTTCTAAAGTACTCATGGTTTTTCTTTGAAATAATTGCAAAGTCGATGGCCACATACTTATTGGAAGAGAATAAAATTAAGCTCCCCAGGGGCCAAAGGTTTCCTGAGGCGTATCACCACGTCTTACATTCTCTGCTCCTTGCAATAATTCCCCATGTGACCATTCGCTATGCAGAGATTCCTGATGAGTCCCGAAATGGGAATTATAGCTTAGCCAGCTTTCTGAAGCGCTGCTTGACCCTGATGGACAGAGGATTTGTTTTCAATTTGATAAATGACTATATATCAGGATTTAGCCCTAAGGATCCTAAGGTTCTTGCTGAATACAAGTTTGAATTTCTCCAAACAATCTGCAATCATGAACATTACATTCCTCTGAACTTGCCAATGGCATTTGCAAAGCCTAAATTACAGAGAGTTCAAGTATAG
Peptide sequence:
MIAILKQSADFLAINKLLKYSWFFFEIIAKSMATYLLEENKIKLPRGQRFPEAYHHVLHSLLLAIIPHVTIRYAEIPDESRNGNYSLASFLKRCLTLMDRGFVFNLINDYISGFSPKDPKVLAEYKFEFLQTICNHEHYIPLNLPMAFAKPKLQRVQV
IRESfinder result
IRESfinder score
0.705124566
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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