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mmu_ciKctd3_4903
Basic information of circular RNA
PanCircBase ID:
mmu_ciKctd3_4903
mm39_Chr. Position ID:
chr1|188719856|188724759|-
Gene name:
Kctd3
Transcript:
ENSMUST00000193143.6
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
4903
Exon/intron sizes in nt:
4903
Flanking exon/introns:
chr1:188719828-188724759
Splice length:
4903
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGAAGACTCCCTTGTGCTTGTCTGTTGTTGCCTGTGGAAGTTTGGAGTTTAGGAGAGACTGGCCATAAGTGTGATGACTGGCTGGTGTTGTTACAACTCTGGGACTAGGTGGTCAGAGCACTCCTCTGTGAGATGTGCTGTGTTAGAGGGAAGCACTGAGGTAGACAGCCTGGTGTGCTTCCATCCAGCGGCAGCTGGCTCCTCCACTCGCACTCTCTGAAAGTGGGTGGGTAAGTAGCTTGTGCTGTCTGGCTTCTGCAGCCACATTTCTCAGACTTTTTTGGTCTCAGAATCAAACCTCTCTTAAGTTAGTTCAGACCAAAAAGTATGTGTAGAGGTTGTTATCTATTGCCATTCATTCATATTATTAAAATTTAAACTTGGAATGTTTAGTACTTACTGATGTAAAAATAGCAATAATAAACTCATTCCATGGTGATTCAAATCACATGTTAATGAAAAGAGATGTTTTCCAAAAAGAAAAATTTTGAGGCAAGTAATATGGGTTTCAATTTGTAGTCTTTTTAAACTTTTATTTTTGTGTATTTCAGTACACGTGCCTGGTGCATGCATGCATGTGTATCTGTGTGTGAGTGCACAAGCCCACTGCTGTCTGCCGAGTCACAGAAAGATGTGGGGGTCCTACTCCTTCATCTTTTGCCTTGTTCCCGTAAGGTAGAGTCTCTCATTGACTTGGAGCTTCCTGGGTTTGCCTGGGCTGACAGACAAGCACAGTGACCCCTGTCTCTGCTAGCACCTTACCCTAAACATGCTAGGACACAGGCATGCACTTGCACCCTACCCTAGACATGCTAGGACACAGGCATGCACTTGCACCCTACCTTAGACATGCTAGGACACAGGCATGCACTCACACCCTACCTTAGACATGCTAGGACACAGGCATGCACTTGCACCCTACCCAACACAGGCTAGGACTCAGGCATGCAGGACACAGGCATGCAGGTCTTTCTCTCTTCTCAGGTGTGTGCTGGGATCTGAACTCACGCATGTGCAGCAAGCGCTGTTGCTAAGCTGACCCTCTCCACAGCCCTGTGGTGATATATTTTGTAATTCCTAAATCTATTTTTGTATTTAGTTTGCTGTGATACATTGTTTTTATTGATCTATGTAAAGACAGGATGGCCTGAAATGATAAACAGTTGTTAATACCTTTTTGTAAATAATGTTTTCAAAAAAACTGTGGCTCTTTCTATTGAATCCTGCACCTGAATCGTGAAACTTCTTCTAGGTCTGCTAAATTGAGATCCTCAGTCTGATTTGCTCTTTGAGTAGTTTGTAACACTGTGTTGATCAGTTGGGAAATGTTGGCTTGCTGAGTTAGGCAGATTTTGTAAATGCTGGTCCCCTTCCCTCCCCAGCTGTAATGTATCCTGACCTTGGAATTGGTGTGGTCACACATCTGACAGTGTTAGGTACTCACGCCTCTGTCAGCGGACATCTTCAGAATATTCATTTCACTTGAAACTGAATTTCTGTAGCTGGCAACAAATAACAACTGACACCCTCCGTGAATTAGGCTTGTTCTGTTTGTCTTGGGGAGCAGTATGCCAGATACCAAATCTGTCTTTCTCCACCTTCTCCCTCCCTCCCTTCCTTGTTTCTTCTCTGAGTGTCTGAGGTCTTCAGCCAGGCACCCCACTCTGAGGTAGAAGCAGAGTGTGGCCGCTGGGGCTTCCCACCAGTCCACGGCACCCCTTTTCACCTTGGTGTCTGTGGTAAGATCCCCGTGCCACCTCCCCATCCTGCTCGGCAGTCTTCATCTCTGTACAGTGATGGGAGTGCCCAGAGCACGAAGACACAGCTGTCCGGAGCTGGACAGATCTGCTGCTTCCTTTTGTGCATTACCTAAAAGTTTCAGCTTGTATTTTGTCCAATTTTGCTGTTTTAAACTGTGAAATAAGTGAATACCATGTATTATGTTTAACAGGATAACTTTCCCCCTTTGGTTGGTTAGAAAACAAATTTTTTTTTTTTTTTAAAGATTTATTTATTTTATTAATGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGAGTCAGATCTTGTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCCTGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCCTAGAAAACAAATTTTAACACTAAAGAAGACCTACTACTGTGCTGGCTAGTTTTATGTCATCTTGACACAAGCTGGAGTCATTTGGGAAGTGAGAATCTCAATTGTGAAATGCTCCCACCTGGTTGGTCTACGGGCACGCCTGTGGCACATTTTCTTCATTGTTAATTGATATGAAGGATTCTGGTAGTGCCCCGCGTGGACAGGGGCTCTGGGATAGTTAAGAAGCAGCTGAGCAAGCCGTGAGGAACAAGCCAGGAAGCAATGCTCCCCTGTGGCCTCTGTATCAGCTCTGTGCCCAGGTTCCTGCCTCAGTTTCTCAGGATGCTGGCTGCAAGCTGGAAGGTGACGTAGAGCCTTCCCTCCCCAAGGCGCTTTTGGTCGTGGTGTTTGTTTCAGCAATAGAGACCTGGCTGGGAAACAGACAGCAAGTCACTCTTTCCTTTCAAGTGCTATTGAGTGGGGATTTTATTCCTCCATTTGCAGAGGGTGGCATGGAGGGAGCCGCTGGAGAATTTGCTCACGCCCGTAGAGAGTACAGCAGGGCTGTTCTTCAGAATTTCACCATCCTGAGAGTGGTGGTTGGGTGGCTGGTGGATGGGTGAGAGTCTTTCCCAAGGTTGGACCCCTGCCCTGTGGCTCAGACAAGGCAGCAGGACGGCTTCAGCAGAGGAGCCAGGGCAGAGCTCCTCACGCTCATGCCATCGCCTTGTCTGCCCACAGCCATCAGGATCCTTGAGCCTAAGCTGGAGTGGCACTTTCAGTTTTGGAGTCTATTCATGATGTCATCCTAGAATTCCCCAAACCTCACCCTTCTCAGGAGGAAAATCAGCTTGTTTTCATTTCTGCAGCAGGACTGAATGAAGTTGGCTTCAGTTGTTTTTAAAAGTTGTCCTGCCTCAAAACCATAGTACTGCTATGTAAATAATTGTGTATGATGTAGAATTAATACCTTCTGCTTTGAAGAACAGTTTATTCCTTTACCTGTTTTTGTTAAGGCCGGGTAAATACATGTCATATAGCTTACTCTGCTCTGTCTTGGTTGGCAGGTGATGTACTCATGTGTCTGTTATATAAATATGTATTTATATACAGACACGTGGTGTGTAAGAGGAGATGTTTCCAGCAGGACTACTGATGTTTTCTTCTGAGTTTCGGCTTTGTCCATTTCTGTTATCTTTCTTACTGCTTTGTTTCTGACATTAAAAACGAGATATGAGGTCAGGATGTGAGTGTGAGTGAGTGCAGGTGTGAGCATGTGTGTGGGCATCTGAGGTCAGGATGTGAGTGCAGGTGTGAGCATGTGTGTGGGCATCTGAGGTCAGGATGTGAGTACAGGTGTGAGCATGTGTGTGGGCATCTGAGGTCAGGATGTGAGTACAGGTGTGAGCATGTGTGTGGGCATCTGAGGTCAGGATGTGAGTGCAGGTGTGAGCATGTGTGTGGGCATCTGAGATCAGGATGTGAGTGTGAGTGAGTGCAGGTGTGAGCATGTGTGTGGGCATCTGAGGTCAGGATGTGAGTGTGAGTGAGTGCTGGTGTGAACATGTGTGGGGCATCTGAGGTCAGGATGTGAGTGTGAGTGAGTGCAGGTGAGAGCATGTGTGGGCATCTGAGGTCAGGATGTGAGTGTGAGTGAGTGCAGGTGTGAGCATGTGTGTGGGCATCTGAGGTTATGATGTGAGTGTGAGTGAGTGCAGGTGTGAGCATGTGTGGGGCATCTGAGGTCAGGATGTGAGTGAGTGCTGGTGTGAGCATGTGTGGGGCATCTGAGGTTATGATGTGAGTGTGAGTGAGTGCTGGTGTGAGCATGTGTGGGGCATCTGAGGTCAGGAGGGATAGATGATGTCTGAAGAACAGGTAAGTACAAGTGGTGATGTCTCTGAGAGCCTGTCTGAGAGACATGGCTGGAGACAGGCTGTGCCACCTGAGAGGAGCCAGAAGTGTAACTCTCATCTTAGTGTGGATGTCCCTTAGACCACACTCTCCTTTCTTACCGTCCTCGGATTCTCCAGCGTGACAGTGCCTGTGGACCTTTGGAAAACCCAGCCCCATGATTTTCTTCCCTTATCCCTTCCGCGGCTCCTTTACCCTCGGATCACTGTCTTGACTGATCTCCCTTCTGTTGTCTGTGCATTGTAGAGATGAGTGTACTTTCCTCTACTAAACTGTGACTCTTGCTAAAATGAGTCTTCTTGTGTTCTTTCAGAGAGCTTCTTGCTTTATACAGTTTCTTTTCAAATAGTTTGATTGCAATGTAAATACTGGGAACAGGGTTAAAGACGTAAATGCTTGTTTTAGATACAGTGTGATGTTGTGGTCTTCTTTTACTTTATTTCTGCGTTCTTTAAGAGACCTTTTTCAGATAGTTGGGTTTCCAAGTGTATGCCTTTAGTCAGTGGTTCCCCAAGATCCAGTCCATGAGCAGGCTGCCTCTGAATTCCCAGCAGGTTTTCCTGGGTCTGGCATAGTCCCTGAGTCCTTTCCTGTCCTGCCTGTCAGGTGGTGGTTATGGTGAGCTAGGGCGAGAACCACAGCCTGAGAGCACACTGGATAGAGATGTGAGATTGCCCAGTGACTCTGCTCTCGGCTTCCCTAATGGAGGCTTAGGAATGTGCAGGTGCTGCCTGAGTTCCGGCCCCATGGATCACAGCACAGGCAGTAGGCTGTGGTAACTGGGGATGGTTAGCCTAGGCTGTGAGTGCTTATAAGGCTGCTGGACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGGCTGTGGTAACTGGGGA
59.88
CACCAGCCAGTCATCACACT
59.96
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCACAGCACAGGCAGTA
59.75
CACCAGCCAGTCATCACACT
59.96
169
PCR template sequence:
CTGCCTGAGTTCCGGCCCCATGGATCACAGCACAGGCAGTAGGCTGTGGTAACTGGGGATGGTTAGCCTAGGCTGTGAGTGCTTATAAGGCTGCTGGACTGTAGGAAGACTCCCTTGTGCTTGTCTGTTGTTGCCTGTGGAAGTTTGGAGTTTAGGAGAGACTGGCCATAAGTGTGATGACTGGCTGGTGTTGTTACAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
46
Interacting miRNAs (#binding sites)
mmu-miR-342-3p(18), mmu-miR-697(11), mmu-miR-3087-3p(5), mmu-miR-467b-5p(3), mmu-miR-137-3p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-199a-5p(1), mmu-miR-7b-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-18a-5p(1), mmu-miR-326-3p(1), mmu-miR-143-3p(1), mmu-miR-138-5p(1), mmu-miR-339-5p(1), mmu-miR-139-5p(1), mmu-miR-10a-5p(1), mmu-miR-381-3p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-153-3p(1), mmu-miR-676-3p(1), mmu-miR-22-3p(1), mmu-miR-501-3p(1), mmu-miR-199b-3p(1), mmu-miR-182-5p(1), mmu-miR-218-5p(1), mmu-miR-199a-3p(1), mmu-miR-370-3p(1), mmu-miR-340-5p(1), mmu-miR-377-3p(1), mmu-miR-466a-5p(1), mmu-miR-466p-5p(1), mmu-miR-410-3p(1), mmu-miR-369-3p(1), mmu-miR-335-3p(1), mmu-miR-669d-5p(1), mmu-miR-452-3p(1), mmu-miR-1199-5p(1), mmu-miR-296-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCTGCTGGACTGTAGGAAGACTCC
siRNA sets
GAGTCTTCCTACAGTCCAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.753063022
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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