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mmu_ciKmt2c_1033
Basic information of circular RNA
PanCircBase ID:
mmu_ciKmt2c_1033
mm39_Chr. Position ID:
chr5|25513564|25514597|-
Gene name:
Kmt2c
Transcript:
ENSMUST00000045291.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
38
Exon/intron offsets:
0
Genomic length:
1033
Exon/intron sizes in nt:
1033
Flanking exon/introns:
chr5:25513548-25514597
Splice length:
1033
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGAAATTCCTTCTGTCTCAAAATAAGTTACTGGGGGCATCTGAGTACATGCAGCATGCTTGTAAATTTTCATTATTGAGATTACATTTGGATCAGTGTAATCTGAGAATTTTCTGTCTTCTCGGGTCTTTACAATGAAAAGATGAATTTTAGATTCCTTCCAGGTCAGTCAAAATTAAGATAACCTTGAATTGTTACCTCACTCAGTTCTGCTTTATATGGTGTTGATGGTGGTTTTAGTTTTATCTGCCAATTGTTATGAGAAATAAATGTAAGGAAATTATGATAGAAATAAAGTTTCTTGTTCTTTTGTGCACAAGTGTTTGGTAAAGGTTTTTTGCATTTTAGGGTTTTTTTTTTAATCCCCCACAGACACATCTTTCAACTTATTTTTGTTGTTTTATTAGTTTTAATAAAAACACAAGTCCATGTAACCCAAACACTTCAGTGCTTTGCCTAGAAGAATTAAGTCAGCAGGCATATATCTGAGGAGTATTTTTTTCTAACTAATAACAAAAAGCATTGTATCAACATGTGGTACAAATTCCATTATTTGACTCTTTTTTCCCACTTATATGTATGCAAAGAGATGCTCTCACTATCCTCATACTTTTATTTTGTAGGTATATCCTGGAGATATTGGTAGTTTTTTATTTCTTTTAAAAACTGATAACTAATTTAGAGGGATTCTTTAGTATTGGAAATAACTGTAAATTCTCATTCCTTTCAGTCCATTACTAAAAAAGATCATTCTAATTGGCACTGTGAAGGTTTGAGCCACTGGGACTCTCGTTGCTGAACATCACTGTTGTGATCCCCTGTAGACTGACAGACTTGTTTTAAAGTATGCTTCAGTTATAGACACCTAAAATGCAGCTACCATTTCTAGATTCCCTTATGTGGTGTAGAAACATATAATGATTCTTGAATAAGGTATAAGAATTTATAAATTATGTAATTGTGATACTTAATTTTACCACTTCATATATCTTGAGCCATGAACTTAAATTATGAAGTAAGTAATGTCAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACTTCATATATCTTGAGCCA
57.11
CACTGATCCAAATGTAATCTCAAT
55.24
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACTTCATATATCTTGAGCCATGA
59.96
CACTGATCCAAATGTAATCTCAAT
55.24
156
PCR template sequence:
AGGTATAAGAATTTATAAATTATGTAATTGTGATACTTAATTTTACCACTTCATATATCTTGAGCCATGAACTTAAATTATGAAGTAAGTAATGTCAAAAGTAGGAAATTCCTTCTGTCTCAAAATAAGTTACTGGGGGCATCTGAGTACATGCAGCATGCTTGTAAATTTTCATTATTGAGATTACATTTGGATCAGTG
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-340-5p(1), mmu-miR-335-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTAATGTCAAAAGTAGGAAATTCCT
siRNA sets
AATTTCCTACTTTTGACAT,GAATTTCCTACTTTTGACA,TTCCTACTTTTGACATTAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIKMT2C_1033_ORF_1
0.5579
-0.340534554
0.012241937
174
ORF sequence:
ATGAACTTAAATTATGAAGTAAGTAATGTCAAAAGTAGGAAATTCCTTCTGTCTCAAAATAAGTTACTGGGGGCATCTGAGTACATGCAGCATGCTTGTAAATTTTCATTATTGAGATTACATTTGGATCAGTGTAATCTGAGAATTTTCTGTCTTCTCGGGTCTTTACAATGA
Peptide sequence:
MNLNYEVSNVKSRKFLLSQNKLLGASEYMQHACKFSLLRLHLDQCNLRIFCLLGSLQ
IRESfinder result
IRESfinder score
0.942624545
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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