top of page
mmu_ciCox15_1700
Basic information of circular RNA
PanCircBase ID:
mmu_ciCox15_1700
mm39_Chr. Position ID:
chr19|43730355|43732055|-
Gene name:
Cox15
Transcript:
ENSMUST00000045562.6
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1700
Exon/intron sizes in nt:
1700
Flanking exon/introns:
chr19:43730353-43732055
Splice length:
1700
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCATCAGGGTCACCACGGCTGCCCGGTGCTGACATGGCAGGGCAGTGGAAAAGCTGGTTCTAATGCATAGTTAGTGAGTCAAAACCAGACTCCCTTAAAGCCTGTTACAAAGCGTGTATCCGTGAGGTTCTGATTCCAGTTCTAACATGTATCAGTATGTCAGTATCACACACACACACTCACACACACACACACACACACACACACACACAGAGCCAGGAGAGTGGCTTGATAATATAGAGGCTGAATACCTTGTCAGCATTATCTAATGAGGAATGTAAAAGCACACATTGTAGGAAAACGGCAAGGGGAGCTGACAGTCAGGCATGACCCAACCACGTTAGCCCTGGCCCCCAGAGTGGATCGTGAATGGCAAGACAAGAGAGACAAGATCAAGAGCTGGGTTTGAACTCTTGCCCCATTGTGCAGTATTAAGTGGGGACACAGCATTAGACTGACACTGTATTGAGCCATAGTGATTTGTGTCTAAAAAGTGCTTTTCTATATGTTGTTTGTTTGTTTGTTTGTTTCAAGAAAATGTTTTTATGTGACTTAAAAGTAAGTTCCAATTGTTTTGAAGCCTTCATTTATGAGAAGTCTCAAATTACCACAGTTGTTTAGGTCACTATTTTCATTCTTTCTTTTTTAATTCTTTCACTTTTTTCTTATATTTACAAATAATGATTATGGGTGGGCCGATGGCTCAGCATGTCTGAAAACTGAGTTCTGTCCTCTGACCCCACGCAAAGGTGAATGAGGAGCGCAATAGACGCCACAATATACATAATGATCATTTAAAATGCTTAAATTTAAAAGTAATACGTAAGTAAGTATTAAATCATGAGTCAACCTGAATAAACTGTTCATGGAAAAAAACTTTGATGTAACATAAGACTTTTTTCAGTAGAATCATTTAATAGGTGTTTAGAGTTAGGGGCTTGAGTCCCAGTAAGGACTGGAAATGTTCAAAACAGAGCCAAATATTGAAACATTTTCATGGTAAATACTCTTCATCTGAAAAATTCTTCCTCTGACTTCCAAGGGAAATTTATAAAATAAACTGCTTGTGTCTATAGCTGTTTCCTGATAAGCCATCTTTCTTCAACCCCTGTGCTCTTTCATCCTTCCTAAGTACTAGCGTGCACACACACACTCACTCACACTCACACATACACACCCAAACCTGGAATGGAACCTGTGGCAGGTTACTGATAACATTTATCAATTTTGCCCTTTTTACTTGTTTATATTCTACCTAATTACAGAAAGAATTTGAGATATATGGCTAGTTAAGCAATATCGAGTCATGTCCTCCATCCCAGAAACTACTAGCTACTGGAGGCTATTTAAATTCTAATTATTTGAAATATATGCGAGTGTCCAAGCTCATTTGGACAGTTCAATATCCAACAATGAAATAGATGTATGTTGGAACAATGTCTGCTGAAAGTGTTTAGCCTGTTAGAACAGGGTCTGCTGGGGATACTTATCCTATGTAGGAACAGGGTGTGATGGGACTACTTACCTACATGTGAACAATGTCTGCTGGAAGCATCATCCTATATTGGAGCAGTGTCTGCTGAGAGTACTTATCCTCGTCAGCAGAGACCATCTGACCTCAAGTTGTCTGGGTTTGGGTTTGCCGATGTTGCGCCTCCATAATTCCTACCCAACAGCTCACCTGATTATCCTTTCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAAGTTGTCTGGGTTTGGGT
59.71
GAACCAGCTTTTCCACTGCC
59.68
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGACCTCAAGTTGTCTGGGT
59.58
GAACCAGCTTTTCCACTGCC
59.68
148
PCR template sequence:
CGTCAGCAGAGACCATCTGACCTCAAGTTGTCTGGGTTTGGGTTTGCCGATGTTGCGCCTCCATAATTCCTACCCAACAGCTCACCTGATTATCCTTTCCGTAAGCATCAGGGTCACCACGGCTGCCCGGTGCTGACATGGCAGGGCAGTGGAAAAGCTGGTTCTAATGCATAGTTAGTGAGTCAAAACCAGACTCCCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-1187(5), mmu-miR-574-5p(3), mmu-miR-540-3p(2), mmu-miR-137-3p(1), mmu-miR-200b-3p(1), mmu-miR-31-5p(1), mmu-miR-200c-3p(1), mmu-miR-149-5p(1), mmu-miR-26b-5p(1), mmu-miR-382-3p(1), mmu-miR-192-5p(1), mmu-miR-297a-5p(1), mmu-miR-224-5p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-3470b(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GATTATCCTTTCCGTAAGCATCAGGG
siRNA sets
CTGATGCTTACGGAAAGGA
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
0.802896796
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page