top of page
mmu_ciPkd1_69
Basic information of circular RNA
PanCircBase ID:
mmu_ciPkd1_69
mm39_Chr. Position ID:
chr17|24805040|24805109|+
Gene name:
Pkd1
Transcript:
ENSMUST00000035565.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
28
Exon/intron offsets:
0
Genomic length:
69
Exon/intron sizes in nt:
69
Flanking exon/introns:
chr17:24805040-24805137
Splice length:
69
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCCTACTACCTGCTGAGGTGGAGACAGGGAGGAGGGGATGGCAGTGCTGGGCGGCTCACTGCTTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGGGATGGCAGTGCTG
60.12
CTGTCTCCACCTCAGCAGG
59.4
65
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGGGATGGCAGTGCTG
60.12
CCTGTCTCCACCTCAGCAG
59.4
66
PCR template sequence:
GAGGGGATGGCAGTGCTGGGCGGCTCACTGCTTCGTAAGCCTACTACCTGCTGAGGTGGAGACAGGGA
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-339-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTCACTGCTTCGTAAGCCTACTAC
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
0.134822475
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page