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mmu_circCers6_181
Basic information of circular RNA
PanCircBase ID:
mmu_circCers6_181
mm39_Chr. Position ID:
chr2|68935346|68936110|+
Gene name:
Cers6
Transcript:
ENSMUST00000176018.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
9,10
Exon/intron offsets:
0,740
Genomic length:
764
Exon/intron sizes in nt:
157,24
Flanking exon/introns:
chr2:68901782-68935346|chr2:68936110-68938785
Splice length:
181
Other database IDs:
circAtlas: mmu-Cers6_0009
circBase: hsa_circ_0117979, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_135016
Human Ortholog IDs:
Mature spliced Sequence:
GGTGTTGAATACCACATTATTTGAAAGTTGGGAGATCGTCGGACCCTACCCTTCCTGGTGGGTTTTTAACCTGCTGCTCTTGTTACTACAAGGGTTGAACTGCTTCTGGTCTTACCTGATTGTAAAAATAGCTTGCAAAACTGTTTCAAAAGGCAAGGCTGGGAAGTGGAACCCTTTGCAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTTGAACTGCTTCTGGTCT
60.2
GTCCGACGATCTCCCAACTT
59.47
134
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTTGAACTGCTTCTGGTC
58.76
GTCCGACGATCTCCCAACTT
59.47
134
PCR template sequence:
GGGTTGAACTGCTTCTGGTCTTACCTGATTGTAAAAATAGCTTGCAAAACTGTTTCAAAAGGCAAGGCTGGGAAGTGGAACCCTTTGCATGGTGTTGAATACCACATTATTTGAAAGTTGGGAGATCGTCGGACCCTACCCTTCCTGGTGGGTTTTTAACCTGCTGCTCTTGTTACTACA
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-16-5p(1), mmu-miR-335-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAACCCTTTGCATGGTGTTGAATACC
siRNA sets
TATTCAACACCATGCAAAG, ATTCAACACCATGCAAAGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCERS6_181_ORF_1
0.8065
-0.096925219
0.055857096
183
ORF sequence:
ATGGTGTTGAATACCACATTATTTGAAAGTTGGGAGATCGTCGGACCCTACCCTTCCTGGTGGGTTTTTAACCTGCTGCTCTTGTTACTACAAGGGTTGAACTGCTTCTGGTCTTACCTGATTGTAAAAATAGCTTGCAAAACTGTTTCAAAAGGCAAGGCTGGGAAGTGGAACCCTTTGCAT
Peptide sequence:
MVLNTTLFESWEIVGPYPSWWVFNLLLLLLQGLNCFWSYLIVKIACKTVSKGKAGKWNPLH
IRESfinder result
IRESfinder score
0.797817078
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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