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mmu_circRbsn_455
Basic information of circular RNA
PanCircBase ID:
mmu_circRbsn_455
mm39_Chr. Position ID:
chr6|92184025|92188882|-
Gene name:
Rbsn
Transcript:
ENSMUST00000014694.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,4543
Genomic length:
4857
Exon/intron sizes in nt:
1,41,314
Flanking exon/introns:
chr6:92179651-92184025|chr6:92188882-92191691
Splice length:
455
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34309, circAtlas: mmu-Zfyve20_0004
Human Ortholog IDs:
Mature spliced Sequence:
ATTTCTTCTGCTGAAGAGAGGAAATCTCATCCAAGGCCACAATGTCACTTCCCAATTATCCGAGTGCTGCCTGCTCAAGCTAACACTGCCAGAGTCCTGCTCCCTCGGGAGGAGTCAAGCTTACTTGGCATGAGGTTCCTGCTTTCCTGGGGTTGAGAGAAGCACAACTATGGCATCTCTTGATGACCCAGGGGAGGTGAGGGAAGGCTTCCTGTGCCCTTTGTGCCTGAAGGACCTTCAGTCTTTCTATCAACTTCAGTCACATTATGAGGAAGAACACTTGGAAGATCGTGATGTCAAAGGGCAAATTAAAAATCTTGTTCAGAAGGCTAGGAAAGCAAAGAACAAGTTGTTGAAACGAGAAGGAGATGATCGAGTGGAACCAGGGACCCAAGGATATGAATCATTCAGTTATGGTGGGGTTGATCCTTACATGTGGGAACCCCAAGAGCTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GATCGAGTGGAACCAGGGAC
59.82
TGGCAGTGTTAGCTTGAGCA
59.89
176
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGATCGAGTGGAACCAGGGA
60.25
TGGCAGTGTTAGCTTGAGCA
59.89
177
PCR template sequence:
AAACGAGAAGGAGATGATCGAGTGGAACCAGGGACCCAAGGATATGAATCATTCAGTTATGGTGGGGTTGATCCTTACATGTGGGAACCCCAAGAGCTTGATTTCTTCTGCTGAAGAGAGGAAATCTCATCCAAGGCCACAATGTCACTTCCCAATTATCCGAGTGCTGCCTGCTCAAGCTAACACTGCCAGAGTCCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-218-5p(1), mmu-miR-362-5p(1), mmu-miR-34b-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCCAAGAGCTTGATTTCTTCTGCTG
siRNA sets
AGAAATCAAGCTCTTGGGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBSN_455_ORF_1
0.9834
0.137007741
0.329477293
300
ORF sequence:
ATGGCATCTCTTGATGACCCAGGGGAGGTGAGGGAAGGCTTCCTGTGCCCTTTGTGCCTGAAGGACCTTCAGTCTTTCTATCAACTTCAGTCACATTATGAGGAAGAACACTTGGAAGATCGTGATGTCAAAGGGCAAATTAAAAATCTTGTTCAGAAGGCTAGGAAAGCAAAGAACAAGTTGTTGAAACGAGAAGGAGATGATCGAGTGGAACCAGGGACCCAAGGATATGAATCATTCAGTTATGGTGGGGTTGATCCTTACATGTGGGAACCCCAAGAGCTTGATTTCTTCTGCTGA
Peptide sequence:
MASLDDPGEVREGFLCPLCLKDLQSFYQLQSHYEEEHLEDRDVKGQIKNLVQKARKAKNKLLKREGDDRVEPGTQGYESFSYGGVDPYMWEPQELDFFC
IRESfinder result
IRESfinder score
0.54275774
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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