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mmu_circNol8_272
Basic information of circular RNA
PanCircBase ID:
mmu_circNol8_272
mm39_Chr. Position ID:
chr13|49826027|49826299|+
Gene name:
Nol8
Transcript:
ENSMUST00000222197.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
272
Exon/intron sizes in nt:
272
Flanking exon/introns:
chr13:49823262-49826027|chr13:49826299-49828861
Splice length:
272
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TAAGGCAACACGGAAGAAGAAAAAGGAAGAAGCAGAGAAGCTGCCTGAGGTATCCCAAGACATGTATTATAACATTGCTGCAGATTTGAAAGAAATATTCCAAAGTATGAGCAACACAGATGAAAAGGAAGAAGATGTGCCCAGGACTGAGGCTGGTGCTAGAGAGGGGACTGGAAAAATCAGGAACGCCGAGACACTGGCATGTGAGCCCGAGCAAACCACTGGCTTTACATTCTCTTTTTTTGATTCAGCCACTAAAGATGAAAAGGATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAATCAGGAACGCCGAGACA
59.68
GGATACCTCAGGCAGCTTCTC
59.93
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAATCAGGAACGCCGAGACA
59.68
GGATACCTCAGGCAGCTTCT
58.87
151
PCR template sequence:
GGAAAAATCAGGAACGCCGAGACACTGGCATGTGAGCCCGAGCAAACCACTGGCTTTACATTCTCTTTTTTTGATTCAGCCACTAAAGATGAAAAGGATGTAAGGCAACACGGAAGAAGAAAAAGGAAGAAGCAGAGAAGCTGCCTGAGGTATCCCAAGACATGTATTATAACATTGCTGCAGATTTGAAAGAAATATTC
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-335-3p(2), mmu-miR-199a-5p(1), mmu-miR-369-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATGAAAAGGATGTAAGGCAACACGG
siRNA sets
GTTGCCTTACATCCTTTTC, TTGCCTTACATCCTTTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNOL8_272_ORF_1
0.8322
0.031140211
0.19528459
300
ORF sequence:
ATGTATTATAACATTGCTGCAGATTTGAAAGAAATATTCCAAAGTATGAGCAACACAGATGAAAAGGAAGAAGATGTGCCCAGGACTGAGGCTGGTGCTAGAGAGGGGACTGGAAAAATCAGGAACGCCGAGACACTGGCATGTGAGCCCGAGCAAACCACTGGCTTTACATTCTCTTTTTTTGATTCAGCCACTAAAGATGAAAAGGATGTAAGGCAACACGGAAGAAGAAAAAGGAAGAAGCAGAGAAGCTGCCTGAGGTATCCCAAGACATGTATTATAACATTGCTGCAGATTTGA
Peptide sequence:
MYYNIAADLKEIFQSMSNTDEKEEDVPRTEAGAREGTGKIRNAETLACEPEQTTGFTFSFFDSATKDEKDVRQHGRRKRKKQRSCLRYPKTCIITLLQI
IRESfinder result
IRESfinder score
0.379679895
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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