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mmu_circRps6ka2_257
Basic information of circular RNA
PanCircBase ID:
mmu_circRps6ka2_257
mm39_Chr. Position ID:
chr17|7549167|7550268|+
Gene name:
Rps6ka2
Transcript:
ENSMUST00000024575.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
13,14
Exon/intron offsets:
0,975
Genomic length:
1101
Exon/intron sizes in nt:
1,31,126
Flanking exon/introns:
chr17:7544964-7549167|chr17:7550268-7556313
Splice length:
257
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_136216
Human Ortholog IDs:
Mature spliced Sequence:
ATTCTCCTGGTGTCCCCCCAAGTGCAAACGCCCACCACCTCTTCAGAGGATTCAGCTTTGTGGCCTCCAGCCTGGTCCAGGAGCCCTCACAGCAAGACGTGCCCAAGGCCCCCATTCACCCAATTGTGCAGCAGCTACATGGGAACAACATCCACTTCACTGACGGCTATGAGATCAAGGAGGACATCGGGGTGGGCTCCTACTCAGTGTGCAAGCGGTGTGTACACAAAGCCACGGATGCTGAGTATGCTGTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAAGGAGGACATCGGGGT
60.33
TGGAGGCCACAAAGCTGAAT
59.89
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATCAAGGAGGACATCGGGG
59.61
TGGAGGCCACAAAGCTGAAT
59.89
154
PCR template sequence:
CACTGACGGCTATGAGATCAAGGAGGACATCGGGGTGGGCTCCTACTCAGTGTGCAAGCGGTGTGTACACAAAGCCACGGATGCTGAGTATGCTGTGAAGATTCTCCTGGTGTCCCCCCAAGTGCAAACGCCCACCACCTCTTCAGAGGATTCAGCTTTGTGGCCTCCAGCCTGGTCCAGGAGCCCTCACAGCAAGACGT
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-320-3p(1), mmu-miR-673-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTATGCTGTGAAGATTCTCCTGGTGT
siRNA sets
CAGGAGAATCTTCACAGCA, ACACCAGGAGAATCTTCAC, CCAGGAGAATCTTCACAGC
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
0.383880708
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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