top of page
mmu_circCep120_530
Basic information of circular RNA
PanCircBase ID:
mmu_circCep120_530
mm39_Chr. Position ID:
chr18|53818954|53840053|-
Gene name:
Cep120
Transcript:
ENSMUST00000049811.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
20,19,18,17
Exon/intron offsets:
0,11712,17239,20937
Genomic length:
21099
Exon/intron sizes in nt:
14,69,91,23,162
Flanking exon/introns:
chr18:53816536-53818954|chr18:53840053-53842128
Splice length:
530
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219822, circAtlas: mmu-Cep120_0007
Human Ortholog IDs:
Mature spliced Sequence:
CTTCAGAGAGAGAGAAAGGAGCTGCAGTTAGAACGGGAGCGGAACCTTCAAGAGCTGCAGGACTCTGTCCGAAGGGCCAGAGACGACTGTGTGTACCAAGTGGAGCTGGAGAGGCTGAAGCTGAAGCAGCTGGAAGAGGACAAACAGCGGCTTCAGCAGCAGCTTAATGATGCTGGCAATAAGTATAAGACTTTGGAAAAAGAGTTTCAGCAGTTCAAGGATCAACAGAACAACAAACCAGAAATCCGGCTGCAGTCAGAAATAAACCTCCTCACCTTGGAGAAGGTTGAACTTGAAAGAAAGTTGGAATCTGCAACCAAGTCTAAACTGCATTACAAGCAGCAGTGGGGCCGAGCTTTGAAAGAACTTGCCAGACTAAAGCAGAGGGAGCAAGAAAGTCAAATGGCCCGCCTTAAAAAACAGCAGGAGGAGTTGGAGCAGATGCGGCTGCGTTACCTGGCGGCTGAGGAGAAAGAAACAGTGAGAACTGAGCAGCAGGAACTGCTGGATATAAGGAACGAGCTGAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCGGCTGAGGAGAAAGAAA
60.32
ACAGAGTCCTGCAGCTCTTG
59.68
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCGGCTGAGGAGAAAGAAA
60.32
TACACACAGTCGTCTCTGGC
59.4
167
PCR template sequence:
AGTTGGAGCAGATGCGGCTGCGTTACCTGGCGGCTGAGGAGAAAGAAACAGTGAGAACTGAGCAGCAGGAACTGCTGGATATAAGGAACGAGCTGAACAGCTTCAGAGAGAGAGAAAGGAGCTGCAGTTAGAACGGGAGCGGAACCTTCAAGAGCTGCAGGACTCTGTCCGAAGGGCCAGAGACGACTGTGTGTACCAAG
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-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGAGCTGAACAGCTTCAGAGAGAGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP120_530_ORF_1
1.2025
0.37400699
0.412142317
159
ORF sequence:
ATGGCCCGCCTTAAAAAACAGCAGGAGGAGTTGGAGCAGATGCGGCTGCGTTACCTGGCGGCTGAGGAGAAAGAAACAGTGAGAACTGAGCAGCAGGAACTGCTGGATATAAGGAACGAGCTGAACAGCTTCAGAGAGAGAGAAAGGAGCTGCAGTTAG
Peptide sequence:
MARLKKQQEELEQMRLRYLAAEEKETVRTEQQELLDIRNELNSFRERERSCS
IRESfinder result
IRESfinder score
0.376161116
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page