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mmu_ciSbno1_794
Basic information of circular RNA
PanCircBase ID:
mmu_ciSbno1_794
mm39_Chr. Position ID:
chr5|124531069|124531863|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
794
Exon/intron sizes in nt:
794
Flanking exon/introns:
chr5:124531069-124531863
Splice length:
794
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTTATTTCACTGACGCCTTGCCATGTTAGTAGGAAACTGAGCTGTTGTGTGGGATCTTTTGAGTTTTCTGGCAGCCAAGGTTACACAGTGAGATCCTGTCTCTAAGACATACAAAAAAGAGAACCTTTTCTGGGCACTGGAGATACTTCTCAGTGGTCATACTGTTCTTGCAGAGAACCTGAGTTCATTTTCCAGCATCTATTTCTGAGGACTCCAGCTCCAGGAGCATTTGATCTCCAAAGACACCTGCACCAATCTCCATATAGATGCATACGAATACCTGTGATTAAAAATTTGACAATCTTTAAAAACATAAACGAAACTTTTTATATACTTAATATTTGTGATCTAGCAGATTCTAATCTTTTCTTAGTGCAGAACAAACTTGTCTGTCTACTGAAGGTTTGACCCAAAAATAAAAGATGAGCTCAGCTTTGTGCTCTTTTTTTGATGTCGGGACAGGGTCTCACTATATCCCTGGATGATGTAGAACTGTGCGTTCATTTCTTTATATTTAATTTGGGGGATGTGGCTTTACTCTGGATCCTAGTCTTTTCCTTCAGTATTCCTGAGTTCTGCGATCCAGGGATTGCAAGATCAGGCCACCCATGGGCTTGCAAGTTTTAACTTCAGAATGTGGACTGATAGCTTTCTGTGTGCAAATAAATGTGCTGGCCACTCCTGGTTGGCAATACTTCTACAAGTAGTCAGCAAAACTGTACTTACCTTCTTTAAAGATTCCATAATGTTCTAATAAGTCATTTGATACATATTTTGCCTGATATTTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTACAAGTAGTCAGCAAAACTGT
58.09
ACCTTGGCTGCCAGAAAACT
60.11
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAGTAGTCAGCAAAACTGTACTT
58.89
ACCTTGGCTGCCAGAAAACT
60.11
176
PCR template sequence:
AATACTTCTACAAGTAGTCAGCAAAACTGTACTTACCTTCTTTAAAGATTCCATAATGTTCTAATAAGTCATTTGATACATATTTTGCCTGATATTTTAGGTGAGTTATTTCACTGACGCCTTGCCATGTTAGTAGGAAACTGAGCTGTTGTGTGGGATCTTTTGAGTTTTCTGGCAGCCAAGGTTACACAGTGAGATCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-320-3p(1), mmu-miR-511-3p(1), mmu-miR-340-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGATATTTTAGGTGAGTTATTTCA
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
0.906600934
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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