top of page
mmu_ciSyt13_305
Basic information of circular RNA
PanCircBase ID:
mmu_ciSyt13_305
mm39_Chr. Position ID:
chr2|92776560|92776865|+
Gene name:
Syt13
Transcript:
ENSMUST00000028648.3
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
305
Exon/intron sizes in nt:
305
Flanking exon/introns:
chr2:92776560-92781646
Splice length:
305
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGGAGCTTTCAGACCAGAGGCCTAGAGCTGGCTGGTAGAGCTTCAGAGGAGAAGGTTGAGATGATGAAACAAGACTCTAGAGACACTCTCAGCTCAGAGCAAAGGCAGCTTGGGCTCCCGGTCAGAGGCCGTAGGTAGCAGATTCGTAGCCCAGAACTTGGGGTTCCTGGCACCTGTTTGAGGACAGACCAGCCACCAGGGGCAGCATCATGGTGAGGGTGGCATCAGCTTTCATGCTATGACAGCCTCCCTCATCTAAATACAGCTTTGATTCTTATGTTCCTCTCCAGCTAGCCCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATCATGGTGAGGGTGGCAT
60.11
GCTCTACCAGCCAGCTCTAG
59.33
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCATGGTGAGGGTGGCATC
59.82
GCTCTACCAGCCAGCTCTAG
59.33
140
PCR template sequence:
CAGCATCATGGTGAGGGTGGCATCAGCTTTCATGCTATGACAGCCTCCCTCATCTAAATACAGCTTTGATTCTTATGTTCCTCTCCAGCTAGCCCTGCAGGTAGGGAGCTTTCAGACCAGAGGCCTAGAGCTGGCTGGTAGAGCTTCAGAGGAGAAGGTTGAGATGATGAAACAAGACTCTAGAGACACTCTCAGCTCAG
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-320-3p(1), mmu-miR-127-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCTAGCCCTGCAGGTAGGGAGCTTTC
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
0.594062177
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page