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mmu_circRc3h2_434
Basic information of circular RNA
PanCircBase ID:
mmu_circRc3h2_434
mm39_Chr. Position ID:
chr2|37272794|37273228|-
Gene name:
Rc3h2
Transcript:
ENSMUST00000112934.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
434
Exon/intron sizes in nt:
434
Flanking exon/introns:
chr2:37272049-37272794|chr2:37273228-37275257
Splice length:
434
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATACTACCCACCACCTCCAACGGTACCAGCTGGTGTGACTCCCTGTGTTCCTCGCTTTGTGAGGTCCAGTAATGTTCCAGAGTCCTCCCTCCCACCTGCTTCCATGCCATATGCTGATCATTACAGTACATTCTCCCCTCGAGATCGAATGAATTCTTCTCCTTACCAACCTCCTCCTCCGCAGCAGTATGGACCAGTTCCTCCAGTACCCTCTGGAATGTATGCTCCGGTGTATGACAGCAGGCGCATCTGGCGCCCAGCTATGTACCAACGAGATGACATTATTAGAAGCAATTCTTTACCTCCAATGGATGTGATGCACTCATCTGTCTATCAGACATCTTTACGGGAAAGATACAACTCATTAGATGGATATTATTCAGTGGCTTGTCAGCCACCGAATGACCCAAGGACAACTGTGCCTTTACCAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTGTCAGCCACCGAATGAC
59.2
GGAGGGAGGACTCTGGAACA
60.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTGTCAGCCACCGAATGA
60.96
GGAGGGAGGACTCTGGAACA
60.25
141
PCR template sequence:
TCAGACATCTTTACGGGAAAGATACAACTCATTAGATGGATATTATTCAGTGGCTTGTCAGCCACCGAATGACCCAAGGACAACTGTGCCTTTACCAAGGGATACTACCCACCACCTCCAACGGTACCAGCTGGTGTGACTCCCTGTGTTCCTCGCTTTGTGAGGTCCAGTAATGTTCCAGAGTCCTCCCTCCCACCTGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-501-3p(1), mmu-miR-705(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCCTTTACCAAGGGATACTACCCACC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRC3H2_434_ORF_1
0.7757
0.129788902
0.348095117
369
ORF sequence:
ATGCCATATGCTGATCATTACAGTACATTCTCCCCTCGAGATCGAATGAATTCTTCTCCTTACCAACCTCCTCCTCCGCAGCAGTATGGACCAGTTCCTCCAGTACCCTCTGGAATGTATGCTCCGGTGTATGACAGCAGGCGCATCTGGCGCCCAGCTATGTACCAACGAGATGACATTATTAGAAGCAATTCTTTACCTCCAATGGATGTGATGCACTCATCTGTCTATCAGACATCTTTACGGGAAAGATACAACTCATTAGATGGATATTATTCAGTGGCTTGTCAGCCACCGAATGACCCAAGGACAACTGTGCCTTTACCAAGGGATACTACCCACCACCTCCAACGGTACCAGCTGGTGTGA
Peptide sequence:
MPYADHYSTFSPRDRMNSSPYQPPPPQQYGPVPPVPSGMYAPVYDSRRIWRPAMYQRDDIIRSNSLPPMDVMHSSVYQTSLRERYNSLDGYYSVACQPPNDPRTTVPLPRDTTHHLQRYQLV
IRESfinder result
IRESfinder score
0.594205041
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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