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mmu_circMed15_371
Basic information of circular RNA
PanCircBase ID:
mmu_circMed15_371
mm39_Chr. Position ID:
chr16|17501022|17524347|-
Gene name:
Med15
Transcript:
ENSMUST00000232645.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,2294,14448,14918,23240
Genomic length:
23325
Exon/intron sizes in nt:
30,52,88,116,85
Flanking exon/introns:
chr16:17492522-17501022|chr16:17524347-17540619
Splice length:
371
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGTGTTGTGTGAAGGTGCCTGAGGCCAGAAGAGGCTGTCAGATCTGGAGCTGTAGTTGCAGATGGTTGTAAGCCACCGAACACAGTAGTTAGAAGTTGGAGCTGGTCTCTTTGGTTCCGTTATGAAGACATTACTTGACATACACAGACTCTTGCCTTGCGAGGATTGGGATGTGGCTTGTGTGGACTGTTCATTTTATAGTGAGGATGCCATGAGGAAAGCTGGTGTGGCCCACAGTAAATCTAGCAAGGATATGGAGAGTCATGTGTTCCTGAAGGCCAAGACCCGGGATGAGTATCTTTCCCTTGTGGCCCGACTCATTATCCATTTCCGAGATATTCATAACAAGAAATCCCAAGCTTCTGTCAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTTGTGGCCCGACTCATTA
59.75
TGTTCGGTGGCTTACAACCA
59.82
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATCTTTCCCTTGTGGCCCG
59.75
TGTTCGGTGGCTTACAACCA
59.82
158
PCR template sequence:
CTGAAGGCCAAGACCCGGGATGAGTATCTTTCCCTTGTGGCCCGACTCATTATCCATTTCCGAGATATTCATAACAAGAAATCCCAAGCTTCTGTCAGTGGGTGTTGTGTGAAGGTGCCTGAGGCCAGAAGAGGCTGTCAGATCTGGAGCTGTAGTTGCAGATGGTTGTAAGCCACCGAACACAGTAGTTAGAAGTTGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(1), mmu-miR-26a-5p(1), mmu-miR-132-3p(1), mmu-miR-191-5p(1), mmu-miR-26b-5p(1), mmu-miR-212-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTCTGTCAGTGGGTGTTGTGTGAA
siRNA sets
TTCACACAACACCCACTGA, ACACAACACCCACTGACAG, TCACACAACACCCACTGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMED15_371_ORF_1
0.7979
0.074008935
0.239097524
321
ORF sequence:
ATGAAGACATTACTTGACATACACAGACTCTTGCCTTGCGAGGATTGGGATGTGGCTTGTGTGGACTGTTCATTTTATAGTGAGGATGCCATGAGGAAAGCTGGTGTGGCCCACAGTAAATCTAGCAAGGATATGGAGAGTCATGTGTTCCTGAAGGCCAAGACCCGGGATGAGTATCTTTCCCTTGTGGCCCGACTCATTATCCATTTCCGAGATATTCATAACAAGAAATCCCAAGCTTCTGTCAGTGGGTGTTGTGTGAAGGTGCCTGAGGCCAGAAGAGGCTGTCAGATCTGGAGCTGTAGTTGCAGATGGTTGTAA
Peptide sequence:
MKTLLDIHRLLPCEDWDVACVDCSFYSEDAMRKAGVAHSKSSKDMESHVFLKAKTRDEYLSLVARLIIHFRDIHNKKSQASVSGCCVKVPEARRGCQIWSCSCRWL
IRESfinder result
IRESfinder score
0.642028851
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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