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mmu_ciCdc42bpa_534
Basic information of circular RNA
PanCircBase ID:
mmu_ciCdc42bpa_534
mm39_Chr. Position ID:
chr1|179965431|179965965|+
Gene name:
Cdc42bpa
Transcript:
ENSMUST00000097453.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
23
Exon/intron offsets:
0
Genomic length:
534
Exon/intron sizes in nt:
534
Flanking exon/introns:
chr1:179965431-179965996
Splice length:
534
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTACCTTGTTTGTCACTTAATAAACATAGTGCTTAAGAGAAAAGTTAATTACTCGAACTCATTTAAATAATATTTTAACTAGAGTCATGATTACATGCAAATGAACTCTAGAATATCACAAACTGTTCTGTCTTTCTGTATCTCGAGATTTGCAAATGTTGCAGTCATCATAAAGGAGTCTTGGGGCTCTGGTCTTACCTAAGAGGGAGGGTTAAGTTAGGAACTATGACGATGTTGGTTTGCTAGCCAGAGTAACACGCACAGTGTGACCTGAGTGTCAGGTTCATCTTATAACCATGTCTGCTTGTTACGCTTTTCTCTAAAAGCCATGAGTGACCTGCATTTAGTGAGTTGTCAGTTCAGAGCCCTCAGAAGCTGCTGGGAACTACAGTGTTCCCACTTTCCCCTCACTGTTGGCCCCTTGTCACTCTTGCAGTCTTAGCAGCGAGAGAGCAGGCCCAGGATAGGCGGGCGCGCACAGACTTCAGGTGCCACCTGCAGCTCACCATAATTCTCATTTGAGTTTTGTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGTCTTAGCAGCGAGAG
59.83
TGAGTTCGAGTAATTAACTTTTCTCT
56.66
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTAGCAGCGAGAGAGCAGG
60.25
TGAGTTCGAGTAATTAACTTTTCTCT
56.66
158
PCR template sequence:
TTGCAGTCTTAGCAGCGAGAGAGCAGGCCCAGGATAGGCGGGCGCGCACAGACTTCAGGTGCCACCTGCAGCTCACCATAATTCTCATTTGAGTTTTGTCGTAAGTACCTTGTTTGTCACTTAATAAACATAGTGCTTAAGAGAAAAGTTAATTACTCGAACTCATTTAAATAATATTTTAACTAGAGTCATGATTACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-135a-5p(1), mmu-miR-499-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTGAGTTTTGTCGTAAGTACCTTGT
siRNA sets
GTACTTACGACAAAACTCA, AAGGTACTTACGACAAAAC, TACTTACGACAAAACTCAA
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
0.817848417
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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