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mmu_circKlhl2_355
Basic information of circular RNA
PanCircBase ID:
mmu_circKlhl2_355
mm39_Chr. Position ID:
chr8|65264331|65287220|-
Gene name:
Klhl2
Transcript:
ENSMUST00000034017.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,11311,22763
Genomic length:
22889
Exon/intron sizes in nt:
122,107,126
Flanking exon/introns:
chr8:65232894-65264331|chr8:65287220-65302284
Splice length:
355
Other database IDs:
circBase: mmu_circ_0001679, CIRCpedia: MMU_CIRCpedia_25937, circAtlas: mmu-Klhl2_0007
circBase: hsa_circ_0071374, CIRCpedia: HSA_CIRCpedia_47876
Human Ortholog IDs:
Mature spliced Sequence:
ATGCACAAAGCAGGGTCATCAGAAGCCCCTCGATTCAAAAGACGAGAATCCTGAGAAACATTGCCCACTGACGGTGAACCCCTGGCACATGAAGAAAGCCTTTAAAGTCATGAACGAACTCAGAAGTCAAAATCTGCTGTGTGACGTCACGATTGTGGCAGAAGACATGGAGATCCCTGCTCACCGCGTGGTGCTGGCGGCCTGCAGTCCGTACTTCCACGCCATGTTTACAGGTGAGATGAGCGAGAGCCGAGCAAAGAGAGTTCGAATAAAGGAGGTGGACGGCTGGACCCTGAGGATGCTGGTCGATTACGTTTACACGGCAGAGATTCAGGTCACAGAGGAGAACGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGGATGCTGGTCGATT
59.53
TCTTCATGTGCCAGGGGTTC
59.96
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGAGGATGCTGGTCGATT
59.53
CTTCATGTGCCAGGGGTTCA
60.25
158
PCR template sequence:
AAAGAGAGTTCGAATAAAGGAGGTGGACGGCTGGACCCTGAGGATGCTGGTCGATTACGTTTACACGGCAGAGATTCAGGTCACAGAGGAGAACGTGCAGATGCACAAAGCAGGGTCATCAGAAGCCCCTCGATTCAAAAGACGAGAATCCTGAGAAACATTGCCCACTGACGGTGAACCCCTGGCACATGAAGAAAGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGAACGTGCAGATGCACAAAGCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKLHL2_355_ORF_1
1.0348
0.409824141
0.658511628
321
ORF sequence:
ATGAAGAAAGCCTTTAAAGTCATGAACGAACTCAGAAGTCAAAATCTGCTGTGTGACGTCACGATTGTGGCAGAAGACATGGAGATCCCTGCTCACCGCGTGGTGCTGGCGGCCTGCAGTCCGTACTTCCACGCCATGTTTACAGGTGAGATGAGCGAGAGCCGAGCAAAGAGAGTTCGAATAAAGGAGGTGGACGGCTGGACCCTGAGGATGCTGGTCGATTACGTTTACACGGCAGAGATTCAGGTCACAGAGGAGAACGTGCAGATGCACAAAGCAGGGTCATCAGAAGCCCCTCGATTCAAAAGACGAGAATCCTGA
Peptide sequence:
MKKAFKVMNELRSQNLLCDVTIVAEDMEIPAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLVDYVYTAEIQVTEENVQMHKAGSSEAPRFKRRES
IRESfinder result
IRESfinder score
0.34336671
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
RPF, cORF, m6A
mmu_circKlhl2_001
Evidence
Peptide sequence:
MKKAFKVMNELRSQNLLCDVTIVAEDMEIPAHRVVLAACSPYFHAMFTGEMSESRAKRVRIKEVDGWTLRMLVDYVYTAEIQVTEENVQMHKAGSSEAPRFKRRES*
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