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mmu_circCop1_619
Basic information of circular RNA
PanCircBase ID:
mmu_circCop1_619
mm39_Chr. Position ID:
chr1|159067131|159105716|+
Gene name:
Cop1
Transcript:
ENSMUST00000076894.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
2,3,4,5,6,7,8,9
Exon/intron offsets:
0,5027,9640,10461,12986,27195,28547,38527
Genomic length:
38585
Exon/intron sizes in nt:
60,98,77,120,69,60,77,58
Flanking exon/introns:
chr1:159060420-159067131|chr1:159105716-159112117
Splice length:
619
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_28904
Human Ortholog IDs:
Mature spliced Sequence:
TCCCATCTGCTTTGATATGATTGAGGAGGCATACATGACAAAATGTGGCCACAGCTTTTGCTACAAGTGTATTCATCAGAGTTTGGAGGACAATAATAGATGTCCCAAGTGTAATTATGTTGTGGACAATATTGACCATCTCTATCCTAATTTCTTGGTGAATGAACTCATTCTCAAACAGAAGCAAAGATTTGAGGAAAAGAGGTTCAAATTGGACCACTCAGTGAGTAGCACCAATGGGCATAGGTGGCAAATATTTCAAGATCTACTAGGAACTGATCAAGATAACCTTGATTTGGCCAATGTCAACCTCATGTTGGAATTATTAGTGCAGAAGAAGAAACAACTGGAAGCAGAATCACATGCAGCTCAGCTACAGATCCTTATGGAATTCCTCAAGGTTGCAAGGAGAAATAAGAGAGAGCAATTGGAGCAGATCCAGAAGGAACTAAGTGTTTTGGAAGAGGATATTAAAAGAGTGGAAGAAATGAGTGGCCTCTACTCTCCTGTCAGTGAAGATAGCACAGTGCCTCAATTTGAAGCTCCTTCTCCATCACACAGTAGCATTATTGATTCTACAGAATACAGCCAACCTCCAGGTTTCAGTGGGACCTCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCCTTCTCCATCACACAGT
59.72
GTAGCAAAAGCTGTGGCCAC
60.04
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCTCCTTCTCCATCACACAG
59.45
GTAGCAAAAGCTGTGGCCAC
60.04
143
PCR template sequence:
TAGCACAGTGCCTCAATTTGAAGCTCCTTCTCCATCACACAGTAGCATTATTGATTCTACAGAATACAGCCAACCTCCAGGTTTCAGTGGGACCTCTCAGTCCCATCTGCTTTGATATGATTGAGGAGGCATACATGACAAAATGTGGCCACAGCTTTTGCTACAAGTGTATTCATCAGAGTTTGGAGGACAATAATAGA
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-155-5p(1), mmu-miR-382-3p(1), mmu-miR-384-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGACCTCTCAGTCCCATCTGCTTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOP1_619_ORF_1
1.0055
0.087562331
0.804635367
618
ORF sequence:
ATGATTGAGGAGGCATACATGACAAAATGTGGCCACAGCTTTTGCTACAAGTGTATTCATCAGAGTTTGGAGGACAATAATAGATGTCCCAAGTGTAATTATGTTGTGGACAATATTGACCATCTCTATCCTAATTTCTTGGTGAATGAACTCATTCTCAAACAGAAGCAAAGATTTGAGGAAAAGAGGTTCAAATTGGACCACTCAGTGAGTAGCACCAATGGGCATAGGTGGCAAATATTTCAAGATCTACTAGGAACTGATCAAGATAACCTTGATTTGGCCAATGTCAACCTCATGTTGGAATTATTAGTGCAGAAGAAGAAACAACTGGAAGCAGAATCACATGCAGCTCAGCTACAGATCCTTATGGAATTCCTCAAGGTTGCAAGGAGAAATAAGAGAGAGCAATTGGAGCAGATCCAGAAGGAACTAAGTGTTTTGGAAGAGGATATTAAAAGAGTGGAAGAAATGAGTGGCCTCTACTCTCCTGTCAGTGAAGATAGCACAGTGCCTCAATTTGAAGCTCCTTCTCCATCACACAGTAGCATTATTGATTCTACAGAATACAGCCAACCTCCAGGTTTCAGTGGGACCTCTCAGTCCCATCTGCTTTGA
Peptide sequence:
MIEEAYMTKCGHSFCYKCIHQSLEDNNRCPKCNYVVDNIDHLYPNFLVNELILKQKQRFEEKRFKLDHSVSSTNGHRWQIFQDLLGTDQDNLDLANVNLMLELLVQKKKQLEAESHAAQLQILMEFLKVARRNKREQLEQIQKELSVLEEDIKRVEEMSGLYSPVSEDSTVPQFEAPSPSHSSIIDSTEYSQPPGFSGTSQSHLL
IRESfinder result
IRESfinder score
0.706273189
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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