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mmu_ciNdufs1_713
Basic information of circular RNA
PanCircBase ID:
mmu_ciNdufs1_713
mm39_Chr. Position ID:
chr1|63208495|63209208|-
Gene name:
Ndufs1
Transcript:
ENSMUST00000027111.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
713
Exon/intron sizes in nt:
713
Flanking exon/introns:
chr1:63208495-63209208
Splice length:
713
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATTACTTTTATGACTCTGTGAGTTTTCTGATTTTTATTTTAAAAAATTATTTCCTTCATACTGTTTAGTTTCAATATAGCAATGTGTCCTGCAAGGCAGGCAAGTGAAGGACAGTACACAGTTTCTCTAAGTTTCTCCAGAAGTAACCAATTTGCTCATAGACAGACGCTGCTGTATGACTGTGGGTTATCACAGACCTAAACTTTTTTTTTTTTCATTTCTAGACTGTGGTTAGACATAGACAGACAGGAAAACACTGAATGTTAGCCAAAAAATAAAAATAAAAACAAACAAACAAACAAACAAACAAATAAATAAATAAAATCAAGGCACAATGGAAAGTATTTTGGCTAGCTCGGGGGTGGTAGAGATGTCAGAAGTAAAACTAAATCATGGCCAGCTATAAGGTGTAAGTTGGTCTGTGACTCAGATGAGAAGAGAAGGTCAGGAGTGACGCTTTGACAGGGAGCTTTTGTGGACTGTGGACAAAGCAGATAATGGAGAAAGACTTTACCATAGACTGTGAGGTCTTACCTAATTTCAGAGCTCCCAGGTTTGGAACAGAGCAAGAGTTCTTGAGGAACTTACATAGGAGTAGGTTAAGATAAGTGGGTAACGGTGATAAAATAATAAAAGATGCCTCCATCTGTTGTGTTCAGTAAGAACAAGATCCAAAGGAAATTATTCTAAAGCAGCATTTTGTCTTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTCCATCTGTTGTGTTCA
59.86
GCCTTGCAGGACACATTGC
60.08
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTCCATCTGTTGTGTTCA
59.86
GCCTTGCAGGACACATTGCT
61.53
173
PCR template sequence:
GGGTAACGGTGATAAAATAATAAAAGATGCCTCCATCTGTTGTGTTCAGTAAGAACAAGATCCAAAGGAAATTATTCTAAAGCAGCATTTTGTCTTCTAGGTAATTACTTTTATGACTCTGTGAGTTTTCTGATTTTTATTTTAAAAAATTATTTCCTTCATACTGTTTAGTTTCAATATAGCAATGTGTCCTGCAAGGC
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-5101(2), mmu-miR-27b-3p(1), mmu-miR-181b-5p(1), mmu-miR-136-5p(1), mmu-miR-3087-3p(1), mmu-miR-1199-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTGTCTTCTAGGTAATTACTTTTA
siRNA sets
AAAGTAATTACCTAGAAGA, AAGTAATTACCTAGAAGAC, AAAAGTAATTACCTAGAAG
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
0.722259515
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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