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mmu_circKy_448
Basic information of circular RNA
PanCircBase ID:
mmu_circKy_448
mm39_Chr. Position ID:
chr9|102398487|102405216|+
Gene name:
Ky
Transcript:
ENSMUST00000039390.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,2029,4109,5407,6611
Genomic length:
6729
Exon/intron sizes in nt:
7,56,38,31,09,118
Flanking exon/introns:
chr9:102390234-102398487|chr9:102405216-102414799
Splice length:
448
Other database IDs:
circAtlas: hsa-KY_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTACTCAGCTGACTGTGGAAATCCACCCCCAAGACGCCATGCCCCAGCTGCTTAAGAAGTTCTCTTTGGCTAAACGTTTACAAGGTGATAAAAATGGAAACATGAGACCCCGGCAGCCTGGAGGGAAAGATGCCCACGCCTACCCCTGGGACAGATCCAGTTTGAAATCCATGCCCCTGGACCTCCGGCTCTTTGAAAAACTGGATGCCTCTGCCTCACAGGTGACAGTCAAGAGTGGCCTGAATGAGCTGGTGAGTGACTTGCTCCAGGAAGCCCACAGCGATCTGGAAAGGGTCAGAGCCATCTGGATCTGGATCTGCCACCATATAGAGTACGACGTTGAGGCTGCCCAGGAGAAGGACCGCCAGGCCTTCAAACCCACTGACATCCTGAGGACCCAGAAGACCAACTGTGATGGTTACGCCGGCCTCTTTGAAAGGATGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCTTCAAACCCACTGAC
60.18
CTTCTTAAGCAGCTGGGGCA
60.32
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGGCCTTCAAACCCACTGA
60.18
CTTCTTAAGCAGCTGGGGCA
60.32
142
PCR template sequence:
CCCAGGAGAAGGACCGCCAGGCCTTCAAACCCACTGACATCCTGAGGACCCAGAAGACCAACTGTGATGGTTACGCCGGCCTCTTTGAAAGGATGTGCAGGTACTCAGCTGACTGTGGAAATCCACCCCCAAGACGCCATGCCCCAGCTGCTTAAGAAGTTCTCTTTGGCTAAACGTTTACAAGGTGATAAAAATGGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-709(1), mmu-miR-224-5p(1), mmu-miR-207(1), mmu-miR-5099(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGGATGTGCAGGTACTCAGCTGAC
siRNA sets
CTGAGTACCTGCACATCCT, TCAGCTGAGTACCTGCACA, GCTGAGTACCTGCACATCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKY_448_ORF_1
1.1269
0.341111583
0.844233205
480
ORF sequence:
ATGGTTACGCCGGCCTCTTTGAAAGGATGTGCAGGTACTCAGCTGACTGTGGAAATCCACCCCCAAGACGCCATGCCCCAGCTGCTTAAGAAGTTCTCTTTGGCTAAACGTTTACAAGGTGATAAAAATGGAAACATGAGACCCCGGCAGCCTGGAGGGAAAGATGCCCACGCCTACCCCTGGGACAGATCCAGTTTGAAATCCATGCCCCTGGACCTCCGGCTCTTTGAAAAACTGGATGCCTCTGCCTCACAGGTGACAGTCAAGAGTGGCCTGAATGAGCTGGTGAGTGACTTGCTCCAGGAAGCCCACAGCGATCTGGAAAGGGTCAGAGCCATCTGGATCTGGATCTGCCACCATATAGAGTACGACGTTGAGGCTGCCCAGGAGAAGGACCGCCAGGCCTTCAAACCCACTGACATCCTGAGGACCCAGAAGACCAACTGTGATGGTTACGCCGGCCTCTTTGAAAGGATGTGC
Peptide sequence:
MVTPASLKGCAGTQLTVEIHPQDAMPQLLKKFSLAKRLQGDKNGNMRPRQPGGKDAHAYPWDRSSLKSMPLDLRLFEKLDASASQVTVKSGLNELVSDLLQEAHSDLERVRAIWIWICHHIEYDVEAAQEKDRQAFKPTDILRTQKTNCDGYAGLFERMC
IRESfinder result
IRESfinder score
0.317716668
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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