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mmu_circ1700029J07Rik_611
Basic information of circular RNA
PanCircBase ID:
mmu_circ1700029J07Rik_611
mm39_Chr. Position ID:
chr8|46420892|46426717|-
Gene name:
1700029J07Rik
Transcript:
ENSMUST00000098786.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,171,2498,5648
Genomic length:
5825
Exon/intron sizes in nt:
76,13,82,20,177
Flanking exon/introns:
chr8:46415470-46420892|chr8:46426717-46428115
Splice length:
611
Other database IDs:
circAtlas: mmu-1700029J07Rik_0007
Human Ortholog IDs:
Mature spliced Sequence:
TTTTCAGTGTAAAGTAGGATTTTGCTGCAAAAGAAGATCTAAGAACCTTTGTGAAGTTACCACCCCAAGGAGCAATCATGCCGATAGAAGGTGGGAAAACAGATATGGAGAGGATTGGCCTCTTCAGTGAGATGGAATACATCACTGTGGGCGACAAATATGTGTCACCATTTAATCGACCCTTTAATGAGGCTGCAAGCAAAAATAGACAGATCCTACCGGGGGGAACCAAAGAAATGTCCAGTCTCCAGGCAGGATACTTTGATTCCCAGTTTGCAAGGATTTTTGAAGGGGAAGGCTACGTGAATTTGAATCAAGTGAGGAGACGGTATATGCTGGCAGAATCCAAAAAGAACCTAGGCAAAGCTTTCATCCCTAGTAGCGGAGAGAAAAAGCCAAGTGGATTAGGAAGCTATTATGGAACAATTGGTGGTCCTGTCCCATTCTTCAGTGCTCAGATAAAACCCAAGGACAAGTATCAGCCACCGGGGAAGAATTTATATACCAACCCAGGAAAAAAAGGAACTGGATATGGCTATGCCAATGTTACCATAGGCAAGCAGCTTTCACATTCTTCTGACTTATATGACGCAGCGAGACAGAGTTATAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCATAGGCAAGCAGCTTTCAC
59.87
ATGATTGCTCCTTGGGGTGG
60.03
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCATAGGCAAGCAGCTTTCA
60.27
ATGATTGCTCCTTGGGGTGG
60.03
142
PCR template sequence:
AGGAAAAAAAGGAACTGGATATGGCTATGCCAATGTTACCATAGGCAAGCAGCTTTCACATTCTTCTGACTTATATGACGCAGCGAGACAGAGTTATAAGTTTTCAGTGTAAAGTAGGATTTTGCTGCAAAAGAAGATCTAAGAACCTTTGTGAAGTTACCACCCCAAGGAGCAATCATGCCGATAGAAGGTGGGAAAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-362-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACAGAGTTATAAGTTTTCAGTGTAAA
siRNA sets
CTGAAAACTTATAACTCTG, TTTACACTGAAAACTTATA, ACTGAAAACTTATAACTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRC1700029J07RIK_611_ORF_1
0.6714
0.119825933
0.600342562
546
ORF sequence:
ATGCCGATAGAAGGTGGGAAAACAGATATGGAGAGGATTGGCCTCTTCAGTGAGATGGAATACATCACTGTGGGCGACAAATATGTGTCACCATTTAATCGACCCTTTAATGAGGCTGCAAGCAAAAATAGACAGATCCTACCGGGGGGAACCAAAGAAATGTCCAGTCTCCAGGCAGGATACTTTGATTCCCAGTTTGCAAGGATTTTTGAAGGGGAAGGCTACGTGAATTTGAATCAAGTGAGGAGACGGTATATGCTGGCAGAATCCAAAAAGAACCTAGGCAAAGCTTTCATCCCTAGTAGCGGAGAGAAAAAGCCAAGTGGATTAGGAAGCTATTATGGAACAATTGGTGGTCCTGTCCCATTCTTCAGTGCTCAGATAAAACCCAAGGACAAGTATCAGCCACCGGGGAAGAATTTATATACCAACCCAGGAAAAAAAGGAACTGGATATGGCTATGCCAATGTTACCATAGGCAAGCAGCTTTCACATTCTTCTGACTTATATGACGCAGCGAGACAGAGTTATAAGTTTTCAGTGTAA
Peptide sequence:
MPIEGGKTDMERIGLFSEMEYITVGDKYVSPFNRPFNEAASKNRQILPGGTKEMSSLQAGYFDSQFARIFEGEGYVNLNQVRRRYMLAESKKNLGKAFIPSSGEKKPSGLGSYYGTIGGPVPFFSAQIKPKDKYQPPGKNLYTNPGKKGTGYGYANVTIGKQLSHSSDLYDAARQSYKFSV
IRESfinder result
IRESfinder score
0.462739707
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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