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mmu_circSil1_139
Basic information of circular RNA
PanCircBase ID:
mmu_circSil1_139
mm39_Chr. Position ID:
chr18|35551109|35551248|-
Gene name:
Sil1
Transcript:
ENSMUST00000237896.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
139
Exon/intron sizes in nt:
139
Flanking exon/introns:
chr18:35536522-35551109|chr18:35551248-35631843
Splice length:
139
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATAATTTTGCACTCACCAACCCAGAGAAGAGCATCCACCAGGAATCAGATACAAAGGAGACCAGGGAAGAGGAGGAGCTAGACACCGAGATCCTGGAGGTGTTCCACCCAACTCAAGAGTGGCAGACCCTTCAACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGGAGCTAGACACCGAG
60.11
ATCTGATTCCTGGTGGATGCTC
59.89
120
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGGAGCTAGACACCGAG
60.11
ATCTGATTCCTGGTGGATGCT
58.87
120
PCR template sequence:
AGGAGGAGCTAGACACCGAGATCCTGGAGGTGTTCCACCCAACTCAAGAGTGGCAGACCCTTCAACCAGAATAATTTTGCACTCACCAACCCAGAGAAGAGCATCCACCAGGAATCAGATACAAAGGAGACCAGGGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-130a-3p(1), mmu-miR-149-5p(1), mmu-miR-301b-3p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCCTTCAACCAGAATAATTTTGCAC
siRNA sets
AAATTATTCTGGTTGAAGG, AAAATTATTCTGGTTGAAG, AATTATTCTGGTTGAAGGG
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
0.625597562
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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