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mmu_circRps6ka2_467
Basic information of circular RNA
PanCircBase ID:
mmu_circRps6ka2_467
mm39_Chr. Position ID:
chr17|7495311|7519045|+
Gene name:
Rps6ka2
Transcript:
ENSMUST00000024575.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,8133,18789,21379,23627
Genomic length:
23734
Exon/intron sizes in nt:
1,17,82,81,80,107
Flanking exon/introns:
chr17:7437842-7495311|chr17:7519045-7521810
Splice length:
467
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAGGCATTGTGAAGGAGATTGACATTAGCAACCATGTGAAGGAAGGCTTTGAGAAGGCAGACCCCTCCCAGTTCGAGCTACTAAAGGTTTTAGGACAAGGGTCGTATGGAAAGGTGTTCTTGGTGAGGAAGGTTACAGGATCAGACGCTGGTCAGCTCTACGCCATGAAGGTCCTGAAGAAAGCCACCTTGAAAGTGCGAGACCGGGTCAGATCTAAGATGGAGAGAGACATCCTGGCAGAGGTGAATCACCCTTTCATTGTCAAGCTGCATTATGCCTTTCAGACCGAAGGCAAGCTCTACCTGATCCTGGACTTCCTGCGGGGAGGTGACCTCTTCACCAGGCTTTCCAAAGAGGTGATGTTCACGGAGGAGGATGTCAAGTTCTACCTGGCTGAGCTGGCCTTGGCTCTAGACCACCTCCATGGCCTGGGGATCATCTACAGGGATCTGAAGCCAGAGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCTACCTGGCTGAGCTGG
60.11
GGTCTGCCTTCTCAAAGCCT
59.96
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCTACCTGGCTGAGCTGG
60.11
AGTAGCTCGAACTGGGAGGG
60.68
167
PCR template sequence:
TCACGGAGGAGGATGTCAAGTTCTACCTGGCTGAGCTGGCCTTGGCTCTAGACCACCTCCATGGCCTGGGGATCATCTACAGGGATCTGAAGCCAGAGAAGAAGAAGGCATTGTGAAGGAGATTGACATTAGCAACCATGTGAAGGAAGGCTTTGAGAAGGCAGACCCCTCCCAGTTCGAGCTACTAAAGGTTTTAGGAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TGAAGCCAGAGAAGAAGAAGGCATTG
siRNA sets
TTCTTCTTCTCTGGCTTCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRPS6KA2_467_ORF_1
1.3009
0.523186106
0.827283141
315
ORF sequence:
ATGAAGGTCCTGAAGAAAGCCACCTTGAAAGTGCGAGACCGGGTCAGATCTAAGATGGAGAGAGACATCCTGGCAGAGGTGAATCACCCTTTCATTGTCAAGCTGCATTATGCCTTTCAGACCGAAGGCAAGCTCTACCTGATCCTGGACTTCCTGCGGGGAGGTGACCTCTTCACCAGGCTTTCCAAAGAGGTGATGTTCACGGAGGAGGATGTCAAGTTCTACCTGGCTGAGCTGGCCTTGGCTCTAGACCACCTCCATGGCCTGGGGATCATCTACAGGGATCTGAAGCCAGAGAAGAAGAAGGCATTGTGA
Peptide sequence:
MKVLKKATLKVRDRVRSKMERDILAEVNHPFIVKLHYAFQTEGKLYLILDFLRGGDLFTRLSKEVMFTEEDVKFYLAELALALDHLHGLGIIYRDLKPEKKKAL
IRESfinder result
IRESfinder score
0.344222645
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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