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mmu_circCopa_697
Basic information of circular RNA
PanCircBase ID:
mmu_circCopa_697
mm39_Chr. Position ID:
chr1|171918505|171929859|+
Gene name:
Copa
Transcript:
ENSMUST00000135192.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
4,5,6,7,8,9,10
Exon/intron offsets:
0,225,1306,6735,8729,10440,11271
Genomic length:
11354
Exon/intron sizes in nt:
81,77,110,110,100,136,83
Flanking exon/introns:
chr1:171916737-171918505|chr1:171929859-171931675
Splice length:
697
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGGAATTACAAACTTCGGCGCTGCCTGTTCACATTGCTCGGGCACTTGGATTATATCCGTACAACGTTTTTCCATCATGAATATCCTTGGATTCTGAGCGCCTCAGATGATCAGACCATTCGGGTGTGGAACTGGCAGTCTAGAACCTGTGTCTGTGTGTTAACGGGGCACAACCATTATGTAATGTGTGCTCAGTTCCACCCCTCTGAAGACCTGGTGGTATCAGCTAGCCTGGACCAGACTGTCCGCGTTTGGGATATTTCTGGTCTAAGGAAGAAAAACTTGTCTCCTGGTGCGGTGGAGTCGGATGTGAGAGGAATAACTGGCGTTGATCTGTTTGGAACCACGGATGCCGTGGTGAAGCATGTGCTAGAGGGTCATGACCGTGGAGTCAACTGGGCTGCCTTCCACCCGACTATGCCCCTTATTGTATCTGGGGCAGATGACCGGCAAGTGAAGATCTGGCGTATGAATGAATCAAAGGCATGGGAGGTTGACACCTGCCGGGGCCATTACAACAATGTGTCTTGTGCTGTTTTTCACCCTCGCCAAGAGTTGATCCTCAGCAATTCTGAAGACAAGAGTATTCGAGTCTGGGATATGTCTAAGCGGACTGGGGTTCAGACTTTCCGTAGGGATCATGATCGCTTCTGGGTCCTGGCTGCCCATCCCAACCTTAACCTCTTTGCAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGTCTAAGCGGACTGGGGT
60.62
GCCCGAGCAATGTGAACAG
59.5
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATATGTCTAAGCGGACTGGG
60.03
GAGCAATGTGAACAGGCAGC
60.11
140
PCR template sequence:
TGGGATATGTCTAAGCGGACTGGGGTTCAGACTTTCCGTAGGGATCATGATCGCTTCTGGGTCCTGGCTGCCCATCCCAACCTTAACCTCTTTGCAGCAGGTTTGGAATTACAAACTTCGGCGCTGCCTGTTCACATTGCTCGGGCACTTGGATTATATCCGTACAACGTTTTTCCATCATGAATATCCTTGGATTCTGA
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-433-3p(1), mmu-miR-323-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCTTTGCAGCAGGTTTGGAATTACA
siRNA sets
TAATTCCAAACCTGCTGCA, GTAATTCCAAACCTGCTGC, AATTCCAAACCTGCTGCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOPA_697_ORF_1
0.8889
0.164997666
0.92159242
750
ORF sequence:
ATGATCGCTTCTGGGTCCTGGCTGCCCATCCCAACCTTAACCTCTTTGCAGCAGGTTTGGAATTACAAACTTCGGCGCTGCCTGTTCACATTGCTCGGGCACTTGGATTATATCCGTACAACGTTTTTCCATCATGAATATCCTTGGATTCTGAGCGCCTCAGATGATCAGACCATTCGGGTGTGGAACTGGCAGTCTAGAACCTGTGTCTGTGTGTTAACGGGGCACAACCATTATGTAATGTGTGCTCAGTTCCACCCCTCTGAAGACCTGGTGGTATCAGCTAGCCTGGACCAGACTGTCCGCGTTTGGGATATTTCTGGTCTAAGGAAGAAAAACTTGTCTCCTGGTGCGGTGGAGTCGGATGTGAGAGGAATAACTGGCGTTGATCTGTTTGGAACCACGGATGCCGTGGTGAAGCATGTGCTAGAGGGTCATGACCGTGGAGTCAACTGGGCTGCCTTCCACCCGACTATGCCCCTTATTGTATCTGGGGCAGATGACCGGCAAGTGAAGATCTGGCGTATGAATGAATCAAAGGCATGGGAGGTTGACACCTGCCGGGGCCATTACAACAATGTGTCTTGTGCTGTTTTTCACCCTCGCCAAGAGTTGATCCTCAGCAATTCTGAAGACAAGAGTATTCGAGTCTGGGATATGTCTAAGCGGACTGGGGTTCAGACTTTCCGTAGGGATCATGATCGCTTCTGGGTCCTGGCTGCCCATCCCAACCTTAACCTCTTTGCAGCA
Peptide sequence:
MIASGSWLPIPTLTSLQQVWNYKLRRCLFTLLGHLDYIRTTFFHHEYPWILSASDDQTIRVWNWQSRTCVCVLTGHNHYVMCAQFHPSEDLVVSASLDQTVRVWDISGLRKKNLSPGAVESDVRGITGVDLFGTTDAVVKHVLEGHDRGVNWAAFHPTMPLIVSGADDRQVKIWRMNESKAWEVDTCRGHYNNVSCAVFHPRQELILSNSEDKSIRVWDMSKRTGVQTFRRDHDRFWVLAAHPNLNLFAA
IRESfinder result
IRESfinder score
0.451929648
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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