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mmu_ciMed1_876
Basic information of circular RNA
PanCircBase ID:
mmu_ciMed1_876
mm39_Chr. Position ID:
chr11|98069966|98070842|-
Gene name:
Med1
Transcript:
ENSMUST00000092735.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
876
Exon/intron sizes in nt:
876
Flanking exon/introns:
chr11:98069966-98070842
Splice length:
876
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGTTGATATTTCCCTGGAATCTATGGGGTTTACCTAGGAACATACTTAAAAATGAATTGTTGGGGTGGGTATAGCTTGTCTTTTAGGGTTTTTTCATGAGCCACTGTAGAGATGATGTGATGGGCCACACTGGTAGTTTTAGAATAAAGTTGAGAATAACAGGTCTTTCTGGTGTCACCAAGGGCTTTGCGGAATAGAAGTACCAACTATAGCCAAGCTCATAGTAACAAACTAGAGCTTGGGTTGAACAAGAGAAGTTCAGAATACAGAAACAGTCTTTCGATCCCATCAAAGTGATTATAATCCTGGCAGACAATATGAACGGTCCTGGAGTAGAAATGAATGTAAAGTGTGTATAACCGAGCAGTTCTATGTAGATTCCAGGGATGATGTTGAAGAAAGAAACTACTGACTACCTTTATAAATGATTTTATTTGTTTTGATTTTAAAAGTCCCACCCCACGTTTATGGTTCACTAGTAGGAAAGGCTTTTGAGGGGCTAGGAAGCTGACTCTGGGTAGTGCCTGAGGACCTGCACTTGGGTCCTTCCCACCACGTAAAGGGTGTGTTCATACCCCGGGCTAGAACTGCTGGGGCAAGCGAGACAGGCAGGGCCGGGATGCTTGCTGGCTAGCTACCTTCAGGGAAGCACCAAGTCTCCAGGTTCAGGGGGACCTTGTCTCAGAATGCATGGAGGAGGACAGCGATAGAGGAGGATGGCTGTGGTCTACACACACACACACACACACGTCAGGGCTTTCTGTGCTGTTAATGTTTTTGTTTTGAAGCATGTGCTATTAATATAAAACTTTTCGATGTTTTTCATTTTGTTAATTAATTTAATGCTTTAACCTAATTTCTTTGGTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTTGTTTTGAAGCATGTGC
58.03
AGCTATACCCACCCCAACAA
58.32
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTTGTTTTGAAGCATGTGC
58.03
AGCTATACCCACCCCAACAAT
58.79
180
PCR template sequence:
ATGTTTTTGTTTTGAAGCATGTGCTATTAATATAAAACTTTTCGATGTTTTTCATTTTGTTAATTAATTTAATGCTTTAACCTAATTTCTTTGGTTTCAGGTATGTGTTGATATTTCCCTGGAATCTATGGGGTTTACCTAGGAACATACTTAAAAATGAATTGTTGGGGTGGGTATAGCTTGTCTTTTAGGGTTTTTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-670-5p(2), mmu-miR-15a-5p(1), mmu-miR-7b-5p(1), mmu-miR-221-3p(1), mmu-miR-7a-5p(1), mmu-miR-196a-5p(1), mmu-miR-139-5p(1), mmu-miR-181b-5p(1), mmu-miR-362-5p(1), mmu-miR-98-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-490-3p(1), mmu-miR-574-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTTTGGTTTCAGGTATGTGTTGATA
siRNA sets
TCAACACATACCTGAAACC, CAACACATACCTGAAACCA, ATCAACACATACCTGAAAC
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
0.80995804
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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