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mmu_ciPex6_333
Basic information of circular RNA
PanCircBase ID:
mmu_ciPex6_333
mm39_Chr. Position ID:
chr17|47023310|47023643|+
Gene name:
Pex6
Transcript:
ENSMUST00000002840.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
333
Exon/intron sizes in nt:
333
Flanking exon/introns:
chr17:47023310-47024833
Splice length:
333
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCAGGAATGCTTCCTTTAACTTTTGCTCTCTTCCCTGTCTTTACTGAGTTGGAAGGCTAAATCTGTAGAATTCAGGTCCCCTGTGCCTTACAATTAGACCTTTCACTTAAGGTCTCTTAGTCTTGTATACTCATTTTCTCTTATCAAACTGTCTTTCACGTGTTCAGGTGAAACATGAGGTTCCCTGCCAAGTACCAGCTCTGCGTACCCCTAGTCTGTAACTGCGTTGCTACGTTAGAATGCTATCCTGGTACCTCTTGCTTTTTCCTTGACTGACTTCTTGTTCTAACTTTATCTGATAAAGCAACTGTCATTTCCGACCTAAACGTGAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTATCCTGGTACCTCTTGC
59.24
AGCCTTCCAACTCAGTAAAGACA
59.61
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTATCCTGGTACCTCTTGC
59.24
TCAGTAAAGACAGGGAAGAGAGC
59.49
140
PCR template sequence:
CGTTAGAATGCTATCCTGGTACCTCTTGCTTTTTCCTTGACTGACTTCTTGTTCTAACTTTATCTGATAAAGCAACTGTCATTTCCGACCTAAACGTGACGTCAGGAATGCTTCCTTTAACTTTTGCTCTCTTCCCTGTCTTTACTGAGTTGGAAGGCTAAATCTGTAGAATTCAGGTCCCCTGTGCCTTACAATTAGAC
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-124-3p(1), mmu-miR-31-5p(1), mmu-miR-381-3p(1), mmu-miR-483-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACCTAAACGTGACGTCAGGAATGCTT
siRNA sets
AAGCATTCCTGACGTCACG, ATTCCTGACGTCACGTTTA, TTCCTGACGTCACGTTTAG
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
0.945377713
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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