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mmu_circRiok2_607
Basic information of circular RNA
PanCircBase ID:
mmu_circRiok2_607
mm39_Chr. Position ID:
chr17|17607325|17610326|+
Gene name:
Riok2
Transcript:
ENSMUST00000024620.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
8,9
Exon/intron offsets:
0,2904
Genomic length:
3001
Exon/intron sizes in nt:
510,97
Flanking exon/introns:
chr17:17605935-17607325|chr17:17610326-17613716
Splice length:
607
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAGGAGGATTCTCTTGATGTTGAGGTCTCTGCCAGTGGTTACACAAAGGAAATGCAAGCAGATGATGAACTGCTACATCCAGTAGGCCCAGATGATAAAATTACTGAAACAGAAGAGGACTCTGACTTCACGTTTTCTGATGAAGAAATGTTAGAAAAAGCCAAAGTGTGGAGGTCAGAATTGGAAAAGGAAGCAGACCCAGCAGATGAATCAGGTGGATCCTGGTGCTGCTCGTCTACAGACAGCAAACAAATAAAGGATGGCGGCTTACCAGAGGAGAGTGCTCATGTGTCCAGTTTCGAAGTGACGGCATTAAGCCAAGCTGTAGAAGAGATGGAAAGGCAGGTTCTTCCCCACAGGTCGGTTACTGAGTTCTCTGAGGAGAGCAGGAGAACTGAAAATGATGGGCAGCCAGGTCAGAGAAGCCCTGCTGGCTCTGAGGACTGTGACGATGAACCCCCCCATCTGATTGCCTTGTCATCAGTGAACAGGGAGTTCAGGCCTTTCAGAGACGAAGAGAGTATGAGTAGTGTTACTCGGCATAGAACAAGAACATTGAGTGTTACGTCTGCGGGCAGTGCCCTAAGCTGTTCAACAATCCCTCCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGTGTTACGTCTGCGGG
60.32
TGGGCCTACTGGATGTAGCA
60.33
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGAGTGTTACGTCTGCGGG
60.32
GGGCCTACTGGATGTAGCAG
59.61
141
PCR template sequence:
CAGAGACGAAGAGAGTATGAGTAGTGTTACTCGGCATAGAACAAGAACATTGAGTGTTACGTCTGCGGGCAGTGCCCTAAGCTGTTCAACAATCCCTCCAGAAGGAGGATTCTCTTGATGTTGAGGTCTCTGCCAGTGGTTACACAAAGGAAATGCAAGCAGATGATGAACTGCTACATCCAGTAGGCCCAGATGATAAA
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-15b-5p(1), mmu-miR-324-3p(1), mmu-miR-207(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
AACAATCCCTCCAGAAGGAGGATTCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRIOK2_607_ORF_1
0.8612
0.133776075
0.733398305
573
ORF sequence:
ATGCAAGCAGATGATGAACTGCTACATCCAGTAGGCCCAGATGATAAAATTACTGAAACAGAAGAGGACTCTGACTTCACGTTTTCTGATGAAGAAATGTTAGAAAAAGCCAAAGTGTGGAGGTCAGAATTGGAAAAGGAAGCAGACCCAGCAGATGAATCAGGTGGATCCTGGTGCTGCTCGTCTACAGACAGCAAACAAATAAAGGATGGCGGCTTACCAGAGGAGAGTGCTCATGTGTCCAGTTTCGAAGTGACGGCATTAAGCCAAGCTGTAGAAGAGATGGAAAGGCAGGTTCTTCCCCACAGGTCGGTTACTGAGTTCTCTGAGGAGAGCAGGAGAACTGAAAATGATGGGCAGCCAGGTCAGAGAAGCCCTGCTGGCTCTGAGGACTGTGACGATGAACCCCCCCATCTGATTGCCTTGTCATCAGTGAACAGGGAGTTCAGGCCTTTCAGAGACGAAGAGAGTATGAGTAGTGTTACTCGGCATAGAACAAGAACATTGAGTGTTACGTCTGCGGGCAGTGCCCTAAGCTGTTCAACAATCCCTCCAGAAGGAGGATTCTCTTGA
Peptide sequence:
MQADDELLHPVGPDDKITETEEDSDFTFSDEEMLEKAKVWRSELEKEADPADESGGSWCCSSTDSKQIKDGGLPEESAHVSSFEVTALSQAVEEMERQVLPHRSVTEFSEESRRTENDGQPGQRSPAGSEDCDDEPPHLIALSSVNREFRPFRDEESMSSVTRHRTRTLSVTSAGSALSCSTIPPEGGFS
IRESfinder result
IRESfinder score
0.442689585
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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