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mmu_ciMarchf6_841
Basic information of circular RNA
PanCircBase ID:
mmu_ciMarchf6_841
mm39_Chr. Position ID:
chr15|31485228|31486069|-
Gene name:
Marchf6
Transcript:
ENSMUST00000090227.6
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
14
Exon/intron offsets:
0
Genomic length:
841
Exon/intron sizes in nt:
841
Flanking exon/introns:
chr15:31485226-31486069
Splice length:
841
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTTGAGTACCACTGAGATATCTCATTTCAAAGCTTCAAAACACGTTTAGAAAACATTTCTTTCAAAGGAAAATATTTGGTGATTTACTTATTTTTGGAACAAAACACTATTAAGTGAATTTTTGTGAATGCAGACTGTAATTAAGAAATCAAGATCTTACATAGTTAAAAAGAATGGTTTTTAATATGAGAGCATAGGTCAGTTGGTAGAATGCTTGCAGGATGCATGAAGTCCTAGGTTCAATTCCCGGTATCAAGTAAGTGTGATAGCATGTGTCTGCAATTGTAGCATCGAGGAAGGAAGAGCCAGGAGGATTGGAACTTCCATGTTTTCTTGAGCTGCACAGCAAGTTCTCGGCTGGCCTGAGATACATGAGATCCCATCACAGGGAGAAACACACAAACAAGCAGAACTAGTGCAACCAATTATTTATGCCTCATGATTTTATTTGCATCATTTATTTTGAGTGTTTGCAAATGCAATGGTGAGAGGACAGCTTGTAAGAGTCCAAGGATGGAAGTTAGGGTCAGCCACCTTGCCTGTCCATGCTTCAACATTTTAAAGTGTTACATGCTCTTACATAGTTTTTTGACACTGTGAACTAGCATTAAGAGAACTGAAAGCCCAAATCATTGACATCATCTACATTTGGAGTTCTGACTGGTTTTTCCAAATTAGTGTTTATTGTACCTTTTATTGTAATTTATAAATGTACAAAATCTTTTCATTAGAAATTAAAACATCACACAATGTTCGTTTTGTGACTTGTTAATGGTGGAAGTCCTAAGCACTGCAAATGTAAGTGGTCTGGATCTCTGACCTGCTCTGTTTTGGCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACATCACACAATGTTCGTTTTGT
58.01
ACGTGTTTTGAAGCTTTGAAATGA
58.59
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAGTCCTAAGCACTGCA
58.94
TCACCAAATATTTTCCTTTGAAAGA
55.64
148
PCR template sequence:
AAACATCACACAATGTTCGTTTTGTGACTTGTTAATGGTGGAAGTCCTAAGCACTGCAAATGTAAGTGGTCTGGATCTCTGACCTGCTCTGTTTTGGCTCGTGAGTTGAGTACCACTGAGATATCTCATTTCAAAGCTTCAAAACACGTTTAGAAAACATTTCTTTCAAAGGAAAATATTTGGTGATTTACTTATTTTTG
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-350-3p(2), mmu-miR-155-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-149-5p(1), mmu-miR-382-3p(1), mmu-miR-411-3p(1), mmu-miR-212-3p(1), mmu-miR-192-5p(1), mmu-miR-215-5p(1), mmu-miR-362-5p(1), mmu-miR-207(1), mmu-miR-540-3p(1), mmu-miR-490-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGTTTTGGCTCGTGAGTTGAGTAC
siRNA sets
NA
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
0.87917868
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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