top of page
mmu_ciMms19_525
Basic information of circular RNA
PanCircBase ID:
mmu_ciMms19_525
mm39_Chr. Position ID:
chr19|41944422|41944947|-
Gene name:
Mms19
Transcript:
ENSMUST00000167927.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
525
Exon/intron sizes in nt:
525
Flanking exon/introns:
chr19:41944400-41944947
Splice length:
525
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTGTTGGTTACTTGAACTCACTGGTGTTAGTTGAGGAGAAGTAATGGCCCTTGCCTGTCCTTTTTCCTGTCTCCCAGGGTCAAGACGCTGTGTGTGTTCTTTTCAGTGAACAAGCAAGGGGATAGAAAGATTTCCAGTTGAATGTCAAAGAGGGCAGTTCTCTTTTGAGGGCTTCCTGCTTGGTGACAATACATGGCCACCTTTGTACAATGCCTGCTTCTTGTTCTGTCATGGCAAGGAGCATAGGTCTGGCACCATCTGAATGTAAAGAGAGAGAAAGAGACTTAAATAAGGGTCACAATAATCTCTATTCTATGTGGGTAACTGTTTCTTGCAGTATGTCATTCCTAGTGGGGTAAAAGACTTGTTGAACATATAACCAACCAAGATGATACTAGTAGATTGGGTTTTTAATTTTCATTGCTGTGCCCCAAACATTCTCAAGTACATATTCTTCTGCACCCCAAGAAGAAAGGCAGTGGAGTGGTGGGGACTTAGCTGGTACAAGCTCACCTCAGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGTGCCCCAAACATTCTC
59.76
GAAAAAGGACAGGCAAGGGC
59.68
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGTGCCCCAAACATTCT
60.47
GAAAAAGGACAGGCAAGGGC
59.68
170
PCR template sequence:
TGCTGTGCCCCAAACATTCTCAAGTACATATTCTTCTGCACCCCAAGAAGAAAGGCAGTGGAGTGGTGGGGACTTAGCTGGTACAAGCTCACCTCAGTAGGTGAGTGTTGGTTACTTGAACTCACTGGTGTTAGTTGAGGAGAAGTAATGGCCCTTGCCTGTCCTTTTTCCTGTCTCCCAGGGTCAAGACGCTGTGTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(2), mmu-miR-26a-5p(1), mmu-miR-146a-5p(1), mmu-miR-181b-5p(1), mmu-miR-26b-5p(1), mmu-miR-483-5p(1), mmu-miR-207(1), mmu-miR-673-5p(1), mmu-miR-146b-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCACCTCAGTAGGTGAGTGTTGGTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIMMS19_525_ORF_1
0.5712
-0.286935093
0.015602412
171
ORF sequence:
ATGATACTAGTAGATTGGGTTTTTAATTTTCATTGCTGTGCCCCAAACATTCTCAAGTACATATTCTTCTGCACCCCAAGAAGAAAGGCAGTGGAGTGGTGGGGACTTAGCTGGTACAAGCTCACCTCAGTAGGTGAGTGTTGGTTACTTGAACTCACTGGTGTTAGTTGA
Peptide sequence:
MILVDWVFNFHCCAPNILKYIFFCTPRRKAVEWWGLSWYKLTSVGECWLLELTGVS
IRESfinder result
IRESfinder score
0.743571521
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page