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mmu_circKmt2e_684_2
Basic information of circular RNA
PanCircBase ID:
mmu_circKmt2e_684_2
mm39_Chr. Position ID:
chr5|23678478|23687509|+
Gene name:
Kmt2e
Transcript:
ENSMUST00000196889.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
7,8,9,10,11
Exon/intron offsets:
0,3005,5033,5372,8921
Genomic length:
9031
Exon/intron sizes in nt:
1,73,39,23,11,31,110
Flanking exon/introns:
chr5:23676804-23678478|chr5:23687509-23690344
Splice length:
684
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGGTGATACCAGTGCAACTGAAAGTGGTGATGAAGTTCCTGTGGAATTATATACTGCATTTCAGCATACTCCAACTTCAATCACTTTAACTGCTTCCAGAGTTCCCAAGGTTACTGATAAAAGAAGGAAAAAAAGTGGGGAGAAAGAACAAAACTTTTCAAAATGTAAAAAAGCCTTTCGTGAAGGATCTAGGAAATCATCAAGGGTTAAGGGTTCAGCACCAGAAATTGATCCTTCATCTGATAGTTCAAATTTTGTTTGGGAAACAAAAATCAAAGCATGGATGGATCGTTACGAAGAAGCAAATAATAACCAATATAGTGAAGGTGTTCAGAGAGAGGCACAAAGACTAGCTCAAAGACTCGGTAGTGGGAATGACAGCAAAGACATGAATAAATCAGAATTGAGTACCAACAACTCACTCTTCAGACCTCCTGTAGAGAGCCATATACAGAAGAATAAAAAAATTCTGAAATCTGCCAAAGACTTGCCTCCTGATGCACTTATCATTGAATATAGAGGGAAGTTTATGCTGAGAGAACAGTTTGAAGCAAATGGATATTTCTTTAAAAGGTGAGGCATGAAATTGAAGAGGGGACCATACATCTCTACATTTATTCTATACAGAGTATTCCAAAAGGGACTGAAATTACCATTGCCTTTGATTTTGACTACGGGAATTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGACTGAAATTACCATTGCCT
59.99
AGCAGTTAAAGTGATTGAAGTTGGA
59.17
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGACTGAAATTACCATTGCCT
59.99
TGGAAGCAGTTAAAGTGATTGAAGT
59.17
144
PCR template sequence:
AAATTGAAGAGGGGACCATACATCTCTACATTTATTCTATACAGAGTATTCCAAAAGGGACTGAAATTACCATTGCCTTTGATTTTGACTACGGGAATTGATGGTGATACCAGTGCAACTGAAAGTGGTGATGAAGTTCCTGTGGAATTATATACTGCATTTCAGCATACTCCAACTTCAATCACTTTAACTGCTTCCAG
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTACGGGAATTGATGGTGATACCAG
siRNA sets
TATCACCATCAATTCCCGT, GGTATCACCATCAATTCCC, ATCACCATCAATTCCCGTA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKMT2E_684_2_ORF_1
0.788
-0.075705954
0.688924695
681
ORF sequence:
ATGAAATTGAAGAGGGGACCATACATCTCTACATTTATTCTATACAGAGTATTCCAAAAGGGACTGAAATTACCATTGCCTTTGATTTTGACTACGGGAATTGATGGTGATACCAGTGCAACTGAAAGTGGTGATGAAGTTCCTGTGGAATTATATACTGCATTTCAGCATACTCCAACTTCAATCACTTTAACTGCTTCCAGAGTTCCCAAGGTTACTGATAAAAGAAGGAAAAAAAGTGGGGAGAAAGAACAAAACTTTTCAAAATGTAAAAAAGCCTTTCGTGAAGGATCTAGGAAATCATCAAGGGTTAAGGGTTCAGCACCAGAAATTGATCCTTCATCTGATAGTTCAAATTTTGTTTGGGAAACAAAAATCAAAGCATGGATGGATCGTTACGAAGAAGCAAATAATAACCAATATAGTGAAGGTGTTCAGAGAGAGGCACAAAGACTAGCTCAAAGACTCGGTAGTGGGAATGACAGCAAAGACATGAATAAATCAGAATTGAGTACCAACAACTCACTCTTCAGACCTCCTGTAGAGAGCCATATACAGAAGAATAAAAAAATTCTGAAATCTGCCAAAGACTTGCCTCCTGATGCACTTATCATTGAATATAGAGGGAAGTTTATGCTGAGAGAACAGTTTGAAGCAAATGGATATTTCTTTAAAAGGTGA
Peptide sequence:
MKLKRGPYISTFILYRVFQKGLKLPLPLILTTGIDGDTSATESGDEVPVELYTAFQHTPTSITLTASRVPKVTDKRRKKSGEKEQNFSKCKKAFREGSRKSSRVKGSAPEIDPSSDSSNFVWETKIKAWMDRYEEANNNQYSEGVQREAQRLAQRLGSGNDSKDMNKSELSTNNSLFRPPVESHIQKNKKILKSAKDLPPDALIIEYRGKFMLREQFEANGYFFKR
IRESfinder result
IRESfinder score
0.772029079
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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