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mmu_circPappa2_1051
Basic information of circular RNA
PanCircBase ID:
mmu_circPappa2_1051
mm39_Chr. Position ID:
chr1|158578099|158615331|-
Gene name:
Pappa2
Transcript:
ENSMUST00000159861.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
20,19,18,17,16,15,14
Exon/intron offsets:
0,11000,12539,14398,31651,33367,37060
Genomic length:
37232
Exon/intron sizes in nt:
72,110,136,169,214,178,172
Flanking exon/introns:
chr1:158544630-158578099|chr1:158615331-158641909
Splice length:
1051
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGTGCTCAACGACCTTGTGGAGAACAGGGAAGATGTGCGCCATTGCTACTCGATCATACGGACATGGTGAATTGTACCTCCAGTAGCCCAGGTCACATGGAGTGCGCTATCACTTGTCAAAGGGGGTATGTCCTTCAGACCAGCAGTGGGCAGTACCTGAGGAACATGCAGAAAGAGATTCTCCTTACTTGTTCCTCTGGCCACTGGGACAAGGATGTGATCTGCAAGCGTCTTGACTGTGGTGTCCCAGACTCCTCCTTGGTGAATTATGCAAACTTCTCCTGCTTGGAGGGTACAGACTTTCTGAAACAATGTTCCATCTCGTGTGTCCCACCGGCTAAGCTCCAAGGACTGAACCCATGGCTGACATGTCTTGAAGATGGACTCTGGTCTCTCCCTGAAGTCTACTGCAAGTTGGAATGTGAAGCTCCTCCAGTTATTCCCAATGCCAATCTGCTCCTGCCACATTTCCTGGAAGGCAACCATGATGTGGGCACCATCTGCAAATATGAGTGCAAACCAGGCTACTATGTGAAGGAGACTTCAGGAAGTCAAGGCAAGAACAAGTTCCTGAAGATCCAGTGCCTGGATGATGGAAGCTGGGAACAAGGGAGCTGCGTCCCCGTGGTTTGTGAGCCTCCTCCTCCGGTGTTTGAAGGCATGTACGAATGTACTGATGGCTTCAAGCTGGACAGCCAGTGTGTGCTCAACTGTAACCAGGAAACGGAAGGGATTCCCATCCTCTGCACTAAAGAGGGGTTGTGGACCCAGGAATTCAAGTTGTGTGAAAACCTGCAAGGAGAATGCCCACCACCCACCTCAGAGCTGAATTCTGTGGAGTACAAGTGTGGACAGGGATATGGGATCGGTGCAGTGTGCTCCCCATCATGTGTAATCCCCCCTAGTGACCCTGTGATACTACCAGAGAATGTGACTACTGACACTTTGGAGCACTGGATGGAACCTGTCAAAGTCCAGAGTATCGTGTGTACCGGCAGGCGCCAGTGGCACCCAGATCCCTCTCTGGTGCACTGCATCCAGTCATGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGTATCGTGTGTACCGGCA
59.55
GACCTGGGCTACTGGAGGTA
60.03
168
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTATCGTGTGTACCGGCAG
59.55
GACCTGGGCTACTGGAGGTA
60.03
167
PCR template sequence:
GCACTGGATGGAACCTGTCAAAGTCCAGAGTATCGTGTGTACCGGCAGGCGCCAGTGGCACCCAGATCCCTCTCTGGTGCACTGCATCCAGTCATGTGAGCTGTGCTCAACGACCTTGTGGAGAACAGGGAAGATGTGCGCCATTGCTACTCGATCATACGGACATGGTGAATTGTACCTCCAGTAGCCCAGGTCACATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-23b-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-148a-3p(1), mmu-miR-298-5p(1), mmu-miR-23a-3p(1), mmu-miR-185-5p(1), mmu-miR-339-5p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-377-3p(1), mmu-miR-532-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGTCATGTGAGCTGTGCTCAACGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPAPPA2_1051_ORF_1
0.7098
0.186244843
0.989434321
1074
ORF sequence:
ATGGTGAATTGTACCTCCAGTAGCCCAGGTCACATGGAGTGCGCTATCACTTGTCAAAGGGGGTATGTCCTTCAGACCAGCAGTGGGCAGTACCTGAGGAACATGCAGAAAGAGATTCTCCTTACTTGTTCCTCTGGCCACTGGGACAAGGATGTGATCTGCAAGCGTCTTGACTGTGGTGTCCCAGACTCCTCCTTGGTGAATTATGCAAACTTCTCCTGCTTGGAGGGTACAGACTTTCTGAAACAATGTTCCATCTCGTGTGTCCCACCGGCTAAGCTCCAAGGACTGAACCCATGGCTGACATGTCTTGAAGATGGACTCTGGTCTCTCCCTGAAGTCTACTGCAAGTTGGAATGTGAAGCTCCTCCAGTTATTCCCAATGCCAATCTGCTCCTGCCACATTTCCTGGAAGGCAACCATGATGTGGGCACCATCTGCAAATATGAGTGCAAACCAGGCTACTATGTGAAGGAGACTTCAGGAAGTCAAGGCAAGAACAAGTTCCTGAAGATCCAGTGCCTGGATGATGGAAGCTGGGAACAAGGGAGCTGCGTCCCCGTGGTTTGTGAGCCTCCTCCTCCGGTGTTTGAAGGCATGTACGAATGTACTGATGGCTTCAAGCTGGACAGCCAGTGTGTGCTCAACTGTAACCAGGAAACGGAAGGGATTCCCATCCTCTGCACTAAAGAGGGGTTGTGGACCCAGGAATTCAAGTTGTGTGAAAACCTGCAAGGAGAATGCCCACCACCCACCTCAGAGCTGAATTCTGTGGAGTACAAGTGTGGACAGGGATATGGGATCGGTGCAGTGTGCTCCCCATCATGTGTAATCCCCCCTAGTGACCCTGTGATACTACCAGAGAATGTGACTACTGACACTTTGGAGCACTGGATGGAACCTGTCAAAGTCCAGAGTATCGTGTGTACCGGCAGGCGCCAGTGGCACCCAGATCCCTCTCTGGTGCACTGCATCCAGTCATGTGAGCTGTGCTCAACGACCTTGTGGAGAACAGGGAAGATGTGCGCCATTGCTACTCGATCATACGGACATGGTGAATTGTACCTCCAGTAG
Peptide sequence:
MVNCTSSSPGHMECAITCQRGYVLQTSSGQYLRNMQKEILLTCSSGHWDKDVICKRLDCGVPDSSLVNYANFSCLEGTDFLKQCSISCVPPAKLQGLNPWLTCLEDGLWSLPEVYCKLECEAPPVIPNANLLLPHFLEGNHDVGTICKYECKPGYYVKETSGSQGKNKFLKIQCLDDGSWEQGSCVPVVCEPPPPVFEGMYECTDGFKLDSQCVLNCNQETEGIPILCTKEGLWTQEFKLCENLQGECPPPTSELNSVEYKCGQGYGIGAVCSPSCVIPPSDPVILPENVTTDTLEHWMEPVKVQSIVCTGRRQWHPDPSLVHCIQSCELCSTTLWRTGKMCAIATRSYGHGELYLQ
IRESfinder result
IRESfinder score
0.421423173
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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