top of page
mmu_ciCopb1_334
Basic information of circular RNA
PanCircBase ID:
mmu_ciCopb1_334
mm39_Chr. Position ID:
chr7|113847708|113848042|-
Gene name:
Copb1
Transcript:
ENSMUST00000033012.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
334
Exon/intron sizes in nt:
334
Flanking exon/introns:
chr7:113846077-113848042
Splice length:
334
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGGAGGATCTATACCATCTACAGGTAAGGGAGGATCTATACCATCTACAGGTAAGGGAGGATCCTCCTTTGCTTTACTTCTGTTTTCAGTGCTTTAGAGTAGAGGTTCCAGTGTGGTTGGTTACAGAATGTATGCACTTGTAGATATGTTTTACTAATCAATACAGTATTTTTTCTCTTACTGTCATTACATTGTTACCATGGAGAAGTCAAAAACGATCTGGCATCAGTGAGCCCTAGTTTCCGCATGACAACAGTCAGCTTGAATGGCACAGTGCCACTTAAGATTATTGTATGCTTTCTAGTTTAAGACCATAACCATTATTCCTAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCTAGTTTCCGCATGAC
60.11
GAGGATCCTCCCTTACCTGT
57.52
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGCCCTAGTTTCCGCATGA
59.82
GAGGATCCTCCCTTACCTGT
57.52
170
PCR template sequence:
GAGCCCTAGTTTCCGCATGACAACAGTCAGCTTGAATGGCACAGTGCCACTTAAGATTATTGTATGCTTTCTAGTTTAAGACCATAACCATTATTCCTAAGTAAGGGAGGATCTATACCATCTACAGGTAAGGGAGGATCTATACCATCTACAGGTAAGGGAGGATCCTCCTTTGCTTTACTTCTGTTTTCAGTGCTTTA
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-429-3p(1), mmu-miR-298-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCATTATTCCTAAGTAAGGGAGGATC
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
0.889849725
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page