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mmu_ciCds1_378
Basic information of circular RNA
PanCircBase ID:
mmu_ciCds1_378
mm39_Chr. Position ID:
chr5|101946382|101946760|+
Gene name:
Cds1
Transcript:
ENSMUST00000031273.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
378
Exon/intron sizes in nt:
378
Flanking exon/introns:
chr5:101946382-101954428
Splice length:
378
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACTTGGGATCTCTCTGTACTGACCCGCAGCTCATGGTTCCCTAGGCTAACGGTTCCCTAGGCTAACGGTTGCGTAGGCTGTTTAAATGCCTTGTGTTTTTCCTGTTGCATTTTATTCTGGGCTCTCCTAAACCTTTCTCACATATAAAGCTATCCCACTGTGGTCTTAAGTAGCATTTACTTTCTAGTGGCAATTATAGAAATACATAATTATAGTTTCCATATTCTTGAGATTTTCTTTTCAGTTCATAGTTTCTAAAAACCTTTGAAACACAGAGCATTTATTAATCAAATATAATTTATAGAAAATTTTACAAATATATATTTATAATATCCCTAGGGAATAAAGCTTTCTTCTAGATTAGCCAGGTAGTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCTAGGGAATAAAGCTTTCTTCT
59.27
ACACAAGGCATTTAAACAGC
55.06
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCTAGGGAATAAAGCTTTCT
56.22
ACACAAGGCATTTAAACAGC
55.06
142
PCR template sequence:
AGCATTTATTAATCAAATATAATTTATAGAAAATTTTACAAATATATATTTATAATATCCCTAGGGAATAAAGCTTTCTTCTAGATTAGCCAGGTAGTCTGTAACTTGGGATCTCTCTGTACTGACCCGCAGCTCATGGTTCCCTAGGCTAACGGTTCCCTAGGCTAACGGTTGCGTAGGCTGTTTAAATGCCTTGTGTT
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-216a-5p(1), mmu-miR-132-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCCAGGTAGTCTGTAACTTGGGATC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.933448946
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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