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mmu_circCop1_761
Basic information of circular RNA
PanCircBase ID:
mmu_circCop1_761
mm39_Chr. Position ID:
chr1|159105658|159147410|+
Gene name:
Cop1
Transcript:
ENSMUST00000076894.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,10,11,12,13,14,15
Exon/intron offsets:
0,6459,10816,28484,30321,30794,41635
Genomic length:
41752
Exon/intron sizes in nt:
58,11,51,36,14,41,09,80,000
Flanking exon/introns:
chr1:159095755-159105658|chr1:159147410-159152486
Splice length:
761
Other database IDs:
circBase: hsa_circ_0015360, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_28884
Human Ortholog IDs:
Mature spliced Sequence:
TAGCATTATTGATTCTACAGAATACAGCCAACCTCCAGGTTTCAGTGGGACCTCTCAGACAAAGAAACAGCCTTGGTATAACAGCACATTAGCATCAAGACGAAAGCGACTCACTGCTCATTTTGAAGACTTAGAGCAGTGTTATTTTTCTACAAGGATGTCTCGTATCTCAGATGACAGTAGAACTGCAAGCCAGTTAGATGAATTTCAAGAATGCTTGTCCAAGTTTACTCGATACAACTCAGTAAGACCGTTGGCCACATTGTCTTATGCTAGTGATCTCTATAATGGTTCCAGCATAGTTTCTAGTATTGAGTTTGACCGGGATTGTGACTATTTTGCAATTGCTGGAGTTACAAAGAAGATTAAAGTCTATGAGTATGGCACAGTCATCCAGGATGCAGTGGATATTCATTACCCTGAGAATGAAATGACCTGCAATTCCAAAATCAGCTGTATCAGTTGGAGTAGTTACCATAAGAACCTGCTAGCCAGCAGTGATTATGAAGGCACTGTTATACTATGGGATGGATTCACAGGACAGAGGTCAAAGGTCTATCAGGAGCATGAAAAAAGGTGTTGGAGTGTTGACTTTAATCTGATGGATCCTAAACTTCTGGCTTCAGGTTCTGATGATGCAAAAGTGAAGCTGTGGTCTACCAATTTAGACAATTCTGTGGCGAGCATTGAGGCAAAGGCTAACGTGTGCTGTGTGAAGTTCAGCCCCTCCTCCAGGTACCATCTGGCTTTCGGCTGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACAATTCTGTGGCGAGCA
59.96
GTCCCACTGAAACCTGGAGG
59.96
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACAATTCTGTGGCGAGCA
59.96
GGTCCCACTGAAACCTGGAG
59.96
147
PCR template sequence:
AATTTAGACAATTCTGTGGCGAGCATTGAGGCAAAGGCTAACGTGTGCTGTGTGAAGTTCAGCCCCTCCTCCAGGTACCATCTGGCTTTCGGCTGTGCAGTAGCATTATTGATTCTACAGAATACAGCCAACCTCCAGGTTTCAGTGGGACCTCTCAGACAAAGAAACAGCCTTGGTATAACAGCACATTAGCATCAAGA
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-141-3p(1), mmu-miR-217-5p(1), mmu-miR-335-3p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCGGCTGTGCAGTAGCATTATTGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOP1_761_ORF_1
0.836
0.093448003
0.842983771
696
ORF sequence:
ATGTCTCGTATCTCAGATGACAGTAGAACTGCAAGCCAGTTAGATGAATTTCAAGAATGCTTGTCCAAGTTTACTCGATACAACTCAGTAAGACCGTTGGCCACATTGTCTTATGCTAGTGATCTCTATAATGGTTCCAGCATAGTTTCTAGTATTGAGTTTGACCGGGATTGTGACTATTTTGCAATTGCTGGAGTTACAAAGAAGATTAAAGTCTATGAGTATGGCACAGTCATCCAGGATGCAGTGGATATTCATTACCCTGAGAATGAAATGACCTGCAATTCCAAAATCAGCTGTATCAGTTGGAGTAGTTACCATAAGAACCTGCTAGCCAGCAGTGATTATGAAGGCACTGTTATACTATGGGATGGATTCACAGGACAGAGGTCAAAGGTCTATCAGGAGCATGAAAAAAGGTGTTGGAGTGTTGACTTTAATCTGATGGATCCTAAACTTCTGGCTTCAGGTTCTGATGATGCAAAAGTGAAGCTGTGGTCTACCAATTTAGACAATTCTGTGGCGAGCATTGAGGCAAAGGCTAACGTGTGCTGTGTGAAGTTCAGCCCCTCCTCCAGGTACCATCTGGCTTTCGGCTGTGCAGTAGCATTATTGATTCTACAGAATACAGCCAACCTCCAGGTTTCAGTGGGACCTCTCAGACAAAGAAACAGCCTTGGTATAACAGCACATTAG
Peptide sequence:
MSRISDDSRTASQLDEFQECLSKFTRYNSVRPLATLSYASDLYNGSSIVSSIEFDRDCDYFAIAGVTKKIKVYEYGTVIQDAVDIHYPENEMTCNSKISCISWSSYHKNLLASSDYEGTVILWDGFTGQRSKVYQEHEKRCWSVDFNLMDPKLLASGSDDAKVKLWSTNLDNSVASIEAKANVCCVKFSPSSRYHLAFGCAVALLILQNTANLQVSVGPLRQRNSLGITAH
IRESfinder result
IRESfinder score
0.637685623
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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