top of page
mmu_circKlc1_118
Basic information of circular RNA
PanCircBase ID:
mmu_circKlc1_118
mm39_Chr. Position ID:
chr12|111751705|111751936|+
Gene name:
Klc1
Transcript:
ENSMUST00000239017.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
10,11
Exon/intron offsets:
0,163
Genomic length:
231
Exon/intron sizes in nt:
50,68
Flanking exon/introns:
chr12:111748477-111751705|chr12:111751936-111753921
Splice length:
118
Other database IDs:
circBase: mmu_circ_0003779, CIRCpedia: MMU_CIRCpedia_3244, circAtlas: mmu-Klc1_0008
circBase: hsa_circ_0101379, circAtlas: hsa-RP11-73M18_0009, CIRCpedia: HSA_CIRCpedia_121153
Human Ortholog IDs:
Mature spliced Sequence:
ACGAGAACAAGCCCATCTGGATGCACGCTGAAGAGAGAGAGGAGTGCAAAGGCAAGCAGAAGGACGGGTCGGCTTTTGGAGAGTATGGCGGCTGGTATAAAGCCTGCAAAGTGGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGAGAGTATGGCGGCTG
60.11
CCAGATGGGCTTGTTCTCGT
60.04
64
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTTGGAGAGTATGGCGGCTG
60.11
TGCATCCAGATGGGCTTGTT
59.96
69
PCR template sequence:
AAGGACGGGTCGGCTTTTGGAGAGTATGGCGGCTGGTATAAAGCCTGCAAAGTGGACAGACGAGAACAAGCCCATCTGGATGCACGCTGAAGAGAGAGAGGAGTGCAAAGGCAAGCAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-25-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GCAAAGTGGACAGACGAGAACAAGCC
siRNA sets
TTGTTCTCGTCTGTCCACT, TCTCGTCTGTCCACTTTGC, CTTGTTCTCGTCTGTCCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKLC1_118_ORF_1
0.8854
0.408222084
0.299297923
150
ORF sequence:
ATGGCGGCTGGTATAAAGCCTGCAAAGTGGACAGACGAGAACAAGCCCATCTGGATGCACGCTGAAGAGAGAGAGGAGTGCAAAGGCAAGCAGAAGGACGGGTCGGCTTTTGGAGAGTATGGCGGCTGGTATAAAGCCTGCAAAGTGGAC
Peptide sequence:
MAAGIKPAKWTDENKPIWMHAEEREECKGKQKDGSAFGEYGGWYKACKVD
IRESfinder result
IRESfinder score
0.083680638
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
RPF, cORF, MS, m6A
mmu_circKlc1_001
Evidence
Peptide sequence:
MAAGIKPAKWTDENKPIWMHAEEREECKGKQKDGSAFGEYGGWYKACKVDRREQAHLDAR*
bottom of page