top of page
mmu_ciR3hdm2_286
Basic information of circular RNA
PanCircBase ID:
mmu_ciR3hdm2_286
mm39_Chr. Position ID:
chr10|127320087|127320373|+
Gene name:
R3hdm2
Transcript:
ENSMUST00000166820.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
18
Exon/intron offsets:
0
Genomic length:
286
Exon/intron sizes in nt:
286
Flanking exon/introns:
chr10:127320087-127320374
Splice length:
286
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAGAGCCCTCTCCCCAGCTGTTAGTCAGTGCATCAGTTGTCCCACATCAGCCCTTTCTTGCTCTGGTCTAGACAACTGGAAGCATGCTGCCCTCGTTGTCTGCTCTGCAGTCTCCTTTCTGCACAGCAGTGGTGGTTTATTTCAGACCTGTACAGTCACCCTATACTTGTGAACCCAAACTATCTCCATTTATAAGTTTCTGATTATCAGCCCTTGAGGCATTTAGTAAATTTGGAAGTGTTGCAGCTGGATTAGAGACCTCTTACATCTGTTTCCTCTCAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTGGAAGTGTTGCAGCTGGA
60.11
CAGCATGCTTCCAGTTGTCT
58.47
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAGTGTTGCAGCTGGAT
59.89
CAGCATGCTTCCAGTTGTCT
58.47
143
PCR template sequence:
CTCCATTTATAAGTTTCTGATTATCAGCCCTTGAGGCATTTAGTAAATTTGGAAGTGTTGCAGCTGGATTAGAGACCTCTTACATCTGTTTCCTCTCAAAGTAAAGAGCCCTCTCCCCAGCTGTTAGTCAGTGCATCAGTTGTCCCACATCAGCCCTTTCTTGCTCTGGTCTAGACAACTGGAAGCATGCTGCCCTCGTT
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-103-3p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTCCTCTCAAAGTAAAGAGCCCTC
siRNA sets
GAGGGCTCTTTACTTTGAG
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
0.889849087
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page