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mmu_ciPbrm1_607
Basic information of circular RNA
PanCircBase ID:
mmu_ciPbrm1_607
mm39_Chr. Position ID:
chr14|30827487|30828094|+
Gene name:
Pbrm1
Transcript:
ENSMUST00000112098.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
26
Exon/intron offsets:
0
Genomic length:
607
Exon/intron sizes in nt:
607
Flanking exon/introns:
chr14:30827487-30828094
Splice length:
607
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGCTTGTAAAACTAAGGAAGAAAGGGCACTGGGCTAACTTACCAGTCATGTTACCCAGTGTTCTGAGTTGTTTTACTAGGTCTTGTCATATCACATAATTCCAATAGAAAATATCAGTTCAGTGAGATGGGGTAATTCCTAGACTTGGGAGGCTGAGGCAGTAGATAGTATTATGTTTGAGTCAACTTTTTTTGTTTTGGTTTGTTTTGTTACAGAGAGAAAAAGTATTGAGTTAAAAAAAAGTTAGCAATTGTTTTAATAGTACCTTGGATTAGACACAAGCAGTTGTAGAATGAAGACAGCACTTGGTTCTATTGGCAGCCTCTCTGTGGGAAGATTTTCTCAGTTTCATAGATTATGACAATTCCTTTTTAACATATAGTCCACTAGACCTGACCCGCACCTCTGTGGGTATTAATCAGAATTGTTAATAAGTAGAAGTGACATCACAAATACCCACTGAAGCTAATTTGTTAGCCTTATAGAGTGTTTGTGGCAGGTTATAATAATACATCATTTGTAAATATTTTCAGGTCTGCCCTCTGACCAGTCCTGGAAGTGGTTGGCAACTTTTCACTTACTTGTTTTGTCACTGTTTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTCAGGTCTGCCCTCTGAC
59.31
ACACTGGGTAACATGACTGGT
58.95
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTTCAGGTCTGCCCTCTGAC
59.93
ACACTGGGTAACATGACTGGT
58.95
142
PCR template sequence:
TAATAATACATCATTTGTAAATATTTTCAGGTCTGCCCTCTGACCAGTCCTGGAAGTGGTTGGCAACTTTTCACTTACTTGTTTTGTCACTGTTTTTCAGGTAAAGCTTGTAAAACTAAGGAAGAAAGGGCACTGGGCTAACTTACCAGTCATGTTACCCAGTGTTCTGAGTTGTTTTACTAGGTCTTGTCATATCACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-188-3p(1), mmu-miR-540-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CACTGTTTTTCAGGTAAAGCTTGTAA
siRNA sets
CAAGCTTTACCTGAAAAAC, AAGCTTTACCTGAAAAACA, TTACAAGCTTTACCTGAAA
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
0.915357703
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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