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mmu_ciMarf1_847
Basic information of circular RNA
PanCircBase ID:
mmu_ciMarf1_847
mm39_Chr. Position ID:
chr16|13944072|13944919|-
Gene name:
Marf1
Transcript:
ENSMUST00000090300.6
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
20
Exon/intron offsets:
0
Genomic length:
847
Exon/intron sizes in nt:
847
Flanking exon/introns:
chr16:13944033-13944919
Splice length:
847
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTGAAGAGGTTCTAATTCTTCAACTGTTTTTGTTTTTGTTTTTTTGTTTTTGTTTTTTTTGTTTTTTTTGAGCAGTGTATAAGGGAGGTGTTACTGTTTCTAGTTATGAGTCTGAAATAACCTCATCAAAAAAGCTGTATTGTTGACCTGTTAGTAAATTAGGTTAATGTGCGATTTGTTCTATAATCTCAGAATTTATGAGGTGGTGCCTGGGGAGTTCTGTGATTAAAGCCAGCCTGGGTTAACCAGCAAAGACTCCACCTCAAAAATAATCTTCAGGGTTAGAAAGATGGTTCAGTGGTTAAGAGTGCTGACTGCTCTTCCAGAGATCCTGAGTTCAGTTCCTAGCAGCCACATGATGGCTCACAACCATCTGTAATGGGATTTGATGCCCTTTTGTGGTGTGTCTGAAGACAGCTACAGTGTACTCATACATTAAATAAATAAATAAATCTTTAAAAAGATAGTCTTCAGCTTGTGTTAGAATAATCACTGGAAATAGGATGAGATGGTTTAAATATTAAACAGTATTTTTTGAGCAGCATTGTGCTTTCCAAACACCCTTGGAGGTGGGGTGGGAGTACTCATGCCAAGCTCTTCCAAGCAGGGCTGGACTTTTGTTATTAGTTTTATTAACATCCTTCATTCCAAAAGTGTTAAAACTTTTTGTTGTTATAAAACATACATAACAGAATTTACTGCCAGGAAAAAGAATGTCTTACATGTGTATTTGAATGCTGAGGGAAGAGCTCTTGTAGAAGTGTGACTTCGTAACACATTCCCATCTTAAGTGACCAATGTGTAGTGTTCCGTGCCACTTAACTTTACCTATAATTATGTGTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTGTAGTGTTCCGTGCCA
59.61
CACCTCCCTTATACACTGCTCA
59.23
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTGTAGTGTTCCGTGCCA
59.61
ACACCTCCCTTATACACTGCTC
59.23
141
PCR template sequence:
GAAGAGCTCTTGTAGAAGTGTGACTTCGTAACACATTCCCATCTTAAGTGACCAATGTGTAGTGTTCCGTGCCACTTAACTTTACCTATAATTATGTGTTGTAAGTGAAGAGGTTCTAATTCTTCAACTGTTTTTGTTTTTGTTTTTTTGTTTTTGTTTTTTTTGTTTTTTTTGAGCAGTGTATAAGGGAGGTGTTACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-32-5p(1), mmu-miR-429-3p(1), mmu-miR-206-3p(1), mmu-miR-200b-3p(1), mmu-miR-434-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ATAATTATGTGTTGTAAGTGAAGAGG
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
0.871693256
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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