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mmu_circAtp8b1_289
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp8b1_289
mm39_Chr. Position ID:
chr18|64678187|64678476|-
Gene name:
Atp8b1
Transcript:
ENSMUST00000025482.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
22
Exon/intron offsets:
0
Genomic length:
289
Exon/intron sizes in nt:
289
Flanking exon/introns:
chr18:64674572-64678187|chr18:64678476-64679061
Splice length:
289
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AATGAAATCCTTCTAGAGAAGAAGACCAAGAGAAGTAAGATCCTGAAGCTGAAGTTCCCAAGGACAGAGGAGGAGAGGCGGATGCGGAGCCAGAGCCGGAGACGGCTGGAAGAGAAGAAAGAGCAGCGGCAAAAGAACTTCGTGGACCTGGCCTGCGAGTGCAGCGCCGTCATCTGCTGCCGCGTCACGCCCAAGCAGAAGGCCATGGTGGTGGACCTGGTGAAGAGGTACAAGAAAGCCATCACCCTGGCCATCGGAGACGGGGCCAATGATGTCAACATGATCAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTGGACCTGGTGAAGAG
59.96
CTCCTCCTCTGTCCTTGGGA
59.96
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGTGGACCTGGTGAAGAG
59.96
TCTCCTCCTCTGTCCTTGGG
59.96
158
PCR template sequence:
CCCAAGCAGAAGGCCATGGTGGTGGACCTGGTGAAGAGGTACAAGAAAGCCATCACCCTGGCCATCGGAGACGGGGCCAATGATGTCAACATGATCAAAAAATGAAATCCTTCTAGAGAAGAAGACCAAGAGAAGTAAGATCCTGAAGCTGAAGTTCCCAAGGACAGAGGAGGAGAGGCGGATGCGGAGCCAGAGCCGGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-149-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AACATGATCAAAAAATGAAATCCTTC
siRNA sets
GAAGGATTTCATTTTTTGA, AAGGATTTCATTTTTTGAT, ATTTCATTTTTTGATCATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP8B1_289_ORF_1
1.1785
0.690874553
0.785280758
213
ORF sequence:
ATGCGGAGCCAGAGCCGGAGACGGCTGGAAGAGAAGAAAGAGCAGCGGCAAAAGAACTTCGTGGACCTGGCCTGCGAGTGCAGCGCCGTCATCTGCTGCCGCGTCACGCCCAAGCAGAAGGCCATGGTGGTGGACCTGGTGAAGAGGTACAAGAAAGCCATCACCCTGGCCATCGGAGACGGGGCCAATGATGTCAACATGATCAAAAAATGA
Peptide sequence:
MRSQSRRRLEEKKEQRQKNFVDLACECSAVICCRVTPKQKAMVVDLVKRYKKAITLAIGDGANDVNMIKK
IRESfinder result
IRESfinder score
0.096217627
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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