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mmu_circRps6ka2_602
Basic information of circular RNA
PanCircBase ID:
mmu_circRps6ka2_602
mm39_Chr. Position ID:
chr17|7503444|7528473|+
Gene name:
Rps6ka2
Transcript:
ENSMUST00000024575.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
3,4,5,6,7,8,9
Exon/intron offsets:
0,10656,13246,15494,18366,19785,24958
Genomic length:
25029
Exon/intron sizes in nt:
82,81,80,107,38,143,71
Flanking exon/introns:
chr17:7495428-7503444|chr17:7528473-7529526
Splice length:
602
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTCTTGGTGAGGAAGGTTACAGGATCAGACGCTGGTCAGCTCTACGCCATGAAGGTCCTGAAGAAAGCCACCTTGAAAGTGCGAGACCGGGTCAGATCTAAGATGGAGAGAGACATCCTGGCAGAGGTGAATCACCCTTTCATTGTCAAGCTGCATTATGCCTTTCAGACCGAAGGCAAGCTCTACCTGATCCTGGACTTCCTGCGGGGAGGTGACCTCTTCACCAGGCTTTCCAAAGAGGTGATGTTCACGGAGGAGGATGTCAAGTTCTACCTGGCTGAGCTGGCCTTGGCTCTAGACCACCTCCATGGCCTGGGGATCATCTACAGGGATCTGAAGCCAGAGAATATCCTCCTGGATGAAGAGGGACACATTAAGATCACAGATTTTGGCTTGAGCAAGGAGGCCACCGACCATGACAAGAGAGCCTATTCATTCTGTGGGACTATTGAATACATGGCGCCCGAGGTGGTGAACCGGCGTGGACACACACAGAGTGCCGACTGGTGGTCCTTCGGTGTGCTCATGTTCGAGATGCTCACAGGGTCCCTGCCATTCCAGGGGAAGGACAGGAAGGAAACAATGGCCCTCATCCTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCGGTGTGCTCATGTTCGA
59.97
CTTCAGGACCTTCATGGCGT
60.04
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTCGGTGTGCTCATGTTCGA
59.97
TCTTCAGGACCTTCATGGCG
59.75
153
PCR template sequence:
CCGACTGGTGGTCCTTCGGTGTGCTCATGTTCGAGATGCTCACAGGGTCCCTGCCATTCCAGGGGAAGGACAGGAAGGAAACAATGGCCCTCATCCTCAAGTGTTCTTGGTGAGGAAGGTTACAGGATCAGACGCTGGTCAGCTCTACGCCATGAAGGTCCTGAAGAAAGCCACCTTGAAAGTGCGAGACCGGGTCAGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-3470b(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTCATCCTCAAGTGTTCTTGGTGA
siRNA sets
GAACACTTGAGGATGAGGG, AAGAACACTTGAGGATGAG, AGAACACTTGAGGATGAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRPS6KA2_602_ORF_1
1.3009
0.447183545
0.954623128
564
ORF sequence:
ATGAAGGTCCTGAAGAAAGCCACCTTGAAAGTGCGAGACCGGGTCAGATCTAAGATGGAGAGAGACATCCTGGCAGAGGTGAATCACCCTTTCATTGTCAAGCTGCATTATGCCTTTCAGACCGAAGGCAAGCTCTACCTGATCCTGGACTTCCTGCGGGGAGGTGACCTCTTCACCAGGCTTTCCAAAGAGGTGATGTTCACGGAGGAGGATGTCAAGTTCTACCTGGCTGAGCTGGCCTTGGCTCTAGACCACCTCCATGGCCTGGGGATCATCTACAGGGATCTGAAGCCAGAGAATATCCTCCTGGATGAAGAGGGACACATTAAGATCACAGATTTTGGCTTGAGCAAGGAGGCCACCGACCATGACAAGAGAGCCTATTCATTCTGTGGGACTATTGAATACATGGCGCCCGAGGTGGTGAACCGGCGTGGACACACACAGAGTGCCGACTGGTGGTCCTTCGGTGTGCTCATGTTCGAGATGCTCACAGGGTCCCTGCCATTCCAGGGGAAGGACAGGAAGGAAACAATGGCCCTCATCCTCAAGTGTTCTTGGTGA
Peptide sequence:
MKVLKKATLKVRDRVRSKMERDILAEVNHPFIVKLHYAFQTEGKLYLILDFLRGGDLFTRLSKEVMFTEEDVKFYLAELALALDHLHGLGIIYRDLKPENILLDEEGHIKITDFGLSKEATDHDKRAYSFCGTIEYMAPEVVNRRGHTQSADWWSFGVLMFEMLTGSLPFQGKDRKETMALILKCSW
IRESfinder result
IRESfinder score
0.308051043
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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