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mmu_circAtp6v1c1_168
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v1c1_168
mm39_Chr. Position ID:
chr15|38681310|38683253|+
Gene name:
Atp6v1c1
Transcript:
ENSMUST00000022904.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,8
Exon/intron offsets:
0,1874
Genomic length:
1943
Exon/intron sizes in nt:
99,69
Flanking exon/introns:
chr15:38679655-38681310|chr15:38683253-38687047
Splice length:
168
Other database IDs:
circBase: mmu_circ_0005628, CIRCpedia: MMU_CIRCpedia_18958, circAtlas: mmu-Atp6v1c1_0005
Human Ortholog IDs:
Mature spliced Sequence:
GGGAAGTTTGCTAACGCGAAGCCTGGCGGAAATCGTGAAGAAAGATGACTTTGTTCTTGATTCGGAGTATCTTGTCACATTGCTGGTGGTAGTTCCCAAGCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGTGGTAGTTCCCAAGCTGA
59.31
TCTTCACGATTTCCGCCAGG
60.39
125
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGTAGTTCCCAAGCTGAACCA
59.93
TCTTCACGATTTCCGCCAGG
60.39
122
PCR template sequence:
GGTGGTAGTTCCCAAGCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGCAAGGGAAGTTTGCTAACGCGAAGCCTGGCGGAAATCGTGAAGAAAGATGACTTTGTTCTTGATTCGGAGTATCTTGTCACATTGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
CAAGGTCAAGCAAGGGAAGTTTGCTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V1C1_168_ORF_1
0.9999
0.199059864
0.229035521
189
ORF sequence:
ATGGTAGTACCAAGGTCAAGCAAGGGAAGTTTGCTAACGCGAAGCCTGGCGGAAATCGTGAAGAAAGATGACTTTGTTCTTGATTCGGAGTATCTTGTCACATTGCTGGTGGTAGTTCCCAAGCTGAACCACAATGACTGGATTAAGCAGTATGAAACGCTCGCAGAAATGGTAGTACCAAGGTCAAGC
Peptide sequence:
MVVPRSSKGSLLTRSLAEIVKKDDFVLDSEYLVTLLVVVPKLNHNDWIKQYETLAEMVVPRSS
IRESfinder result
IRESfinder score
0.170337864
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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