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mmu_circCops3_675
Basic information of circular RNA
PanCircBase ID:
mmu_circCops3_675
mm39_Chr. Position ID:
chr11|59712125|59721065|-
Gene name:
Cops3
Transcript:
ENSMUST00000019517.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,8,7,6,5
Exon/intron offsets:
0,2975,4990,6546,8847
Genomic length:
8940
Exon/intron sizes in nt:
87,174,141,180,93
Flanking exon/introns:
chr11:59710944-59712125|chr11:59721065-59723709
Splice length:
675
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CCCCTTCGAGGAATTGGCATCCTTAAGCAAGCCATAGACAAGATGCAGATGAATACCAACCAACTGACCTCAGTACATGCCGATCTCTGCCAGCTTTGTTTACTAGCGAAGTGCTTTAAACCTGCCCTTCCATATCTTGATGTGGATATGATGGATATCTGTAAAGAGAATGGAGCCTATGATGCAAAACACTTTCTGTGCTACTACTATTATGGAGGAATGATCTATACGGGGCTGAAGAACTTTGAAAGAGCGCTGTACTTTTATGAGCAGGCTATAACTACTCCTGCCATGGCCGTCAGCCATATCATGTTGGAATCATATAAAAAGTATATTCTAGTGTCTTTGATATTACTTGGCAAAGTACAACAGCTGCCTAAATACACCTCTCAAATAGTGGGTAGATTTATTAAGCCTCTCAGCAATGCTTACCATGAGTTAGCACAAGTTTATTCAACCAACAACCCGTCTGAGCTGCGGAACCTGGTGAGCAAGCACAGCGAGACCTTCACTCGAGACAACAACATGGGCCTGGTGAAGCAGTGCCTGTCGTCTCTTTATAAGAAGAACATTCAGAGGCTGACAAAGACTTTTTTAACACTATCATTACAAGATATGGCAAGCCGTGTACAGTTATCTGGACCACAGGAGGCAGAAAAATATGTTCTACACATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGCAAGCCGTGTACAGTT
60.25
TGGCAGAGATCGGCATGTAC
59.9
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCAAGCCGTGTACAGTTA
59.61
TGGCAGAGATCGGCATGTAC
59.9
151
PCR template sequence:
GAGGCTGACAAAGACTTTTTTAACACTATCATTACAAGATATGGCAAGCCGTGTACAGTTATCTGGACCACAGGAGGCAGAAAAATATGTTCTACACATGCCCCTTCGAGGAATTGGCATCCTTAAGCAAGCCATAGACAAGATGCAGATGAATACCAACCAACTGACCTCAGTACATGCCGATCTCTGCCAGCTTTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-320-3p(1), mmu-miR-136-5p(1), mmu-miR-218-5p(1), mmu-miR-511-3p(1), mmu-miR-340-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTCTACACATGCCCCTTCGAGGAA
siRNA sets
AAGGGGCATGTGTAGAACA, GAAGGGGCATGTGTAGAAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOPS3_675_ORF_1
0.8729
0.136116675
0.998245976
1308
ORF sequence:
ATGCAGATGAATACCAACCAACTGACCTCAGTACATGCCGATCTCTGCCAGCTTTGTTTACTAGCGAAGTGCTTTAAACCTGCCCTTCCATATCTTGATGTGGATATGATGGATATCTGTAAAGAGAATGGAGCCTATGATGCAAAACACTTTCTGTGCTACTACTATTATGGAGGAATGATCTATACGGGGCTGAAGAACTTTGAAAGAGCGCTGTACTTTTATGAGCAGGCTATAACTACTCCTGCCATGGCCGTCAGCCATATCATGTTGGAATCATATAAAAAGTATATTCTAGTGTCTTTGATATTACTTGGCAAAGTACAACAGCTGCCTAAATACACCTCTCAAATAGTGGGTAGATTTATTAAGCCTCTCAGCAATGCTTACCATGAGTTAGCACAAGTTTATTCAACCAACAACCCGTCTGAGCTGCGGAACCTGGTGAGCAAGCACAGCGAGACCTTCACTCGAGACAACAACATGGGCCTGGTGAAGCAGTGCCTGTCGTCTCTTTATAAGAAGAACATTCAGAGGCTGACAAAGACTTTTTTAACACTATCATTACAAGATATGGCAAGCCGTGTACAGTTATCTGGACCACAGGAGGCAGAAAAATATGTTCTACACATGCCCCTTCGAGGAATTGGCATCCTTAAGCAAGCCATAGACAAGATGCAGATGAATACCAACCAACTGACCTCAGTACATGCCGATCTCTGCCAGCTTTGTTTACTAGCGAAGTGCTTTAAACCTGCCCTTCCATATCTTGATGTGGATATGATGGATATCTGTAAAGAGAATGGAGCCTATGATGCAAAACACTTTCTGTGCTACTACTATTATGGAGGAATGATCTATACGGGGCTGAAGAACTTTGAAAGAGCGCTGTACTTTTATGAGCAGGCTATAACTACTCCTGCCATGGCCGTCAGCCATATCATGTTGGAATCATATAAAAAGTATATTCTAGTGTCTTTGATATTACTTGGCAAAGTACAACAGCTGCCTAAATACACCTCTCAAATAGTGGGTAGATTTATTAAGCCTCTCAGCAATGCTTACCATGAGTTAGCACAAGTTTATTCAACCAACAACCCGTCTGAGCTGCGGAACCTGGTGAGCAAGCACAGCGAGACCTTCACTCGAGACAACAACATGGGCCTGGTGAAGCAGTGCCTGTCGTCTCTTTATAAGAAGAACATTCAGAGGCTGACAAAGACTTTTTTAACACTATCATTACAAGATATGGCAAGCCGTGTACAGTTATCTGGACCACAGGAGGCAGAAAAATATGTTCTACACATG
Peptide sequence:
MQMNTNQLTSVHADLCQLCLLAKCFKPALPYLDVDMMDICKENGAYDAKHFLCYYYYGGMIYTGLKNFERALYFYEQAITTPAMAVSHIMLESYKKYILVSLILLGKVQQLPKYTSQIVGRFIKPLSNAYHELAQVYSTNNPSELRNLVSKHSETFTRDNNMGLVKQCLSSLYKKNIQRLTKTFLTLSLQDMASRVQLSGPQEAEKYVLHMPLRGIGILKQAIDKMQMNTNQLTSVHADLCQLCLLAKCFKPALPYLDVDMMDICKENGAYDAKHFLCYYYYGGMIYTGLKNFERALYFYEQAITTPAMAVSHIMLESYKKYILVSLILLGKVQQLPKYTSQIVGRFIKPLSNAYHELAQVYSTNNPSELRNLVSKHSETFTRDNNMGLVKQCLSSLYKKNIQRLTKTFLTLSLQDMASRVQLSGPQEAEKYVLHM
IRESfinder result
IRESfinder score
0.658923179
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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