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mmu_circRcan2_227
Basic information of circular RNA
PanCircBase ID:
mmu_circRcan2_227
mm39_Chr. Position ID:
chr17|44147161|44147388|+
Gene name:
Rcan2
Transcript:
ENSMUST00000228972.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
227
Exon/intron sizes in nt:
227
Flanking exon/introns:
chr17:44112557-44147161|chr17:44147388-44328657
Splice length:
227
Other database IDs:
circAtlas: mmu-Rcan2_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_55204
Human Ortholog IDs:
Mature spliced Sequence:
GGATGAGGGGAGACGCCTACTTCATTGGAATGAGGAGCTTGGGGCAGCAGGCATCTATCCCTGAAGATGGGGGACTTTTCTTCCTCTGCTGCATAGACAGAGACTGGGCTGTCACTCAGTGTTTTGCTGAAGAGGCCTTCCAAGCACTCACTGACTTCAGTGATCTCCCCAACTCATTGTTTGCCTGCAATGTTCACCAGTCTGTGTTTGAAGAAGAGGAGAGCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAGGCCTTCCAAGCACTC
59.96
CCCCAAGCTCCTCATTCCAA
59.67
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGAGGCCTTCCAAGCACT
59.96
CCCCAAGCTCCTCATTCCAA
59.67
143
PCR template sequence:
TGAAGAGGCCTTCCAAGCACTCACTGACTTCAGTGATCTCCCCAACTCATTGTTTGCCTGCAATGTTCACCAGTCTGTGTTTGAAGAAGAGGAGAGCAAGGGATGAGGGGAGACGCCTACTTCATTGGAATGAGGAGCTTGGGGCAGCAGGCATCTATCCCTGAAGATGGGGGACTTTTCTTCCTCTGCTGCATAGACAG
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-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-298-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAGGAGAGCAAGGGATGAGGGGAGA
siRNA sets
TCTCCCCTCATCCCTTGCT, TCATCCCTTGCTCTCCTCT, CTCCCCTCATCCCTTGCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRCAN2_227_ORF_1
0.7933
0.115111788
0.162345388
231
ORF sequence:
ATGAGGGGAGACGCCTACTTCATTGGAATGAGGAGCTTGGGGCAGCAGGCATCTATCCCTGAAGATGGGGGACTTTTCTTCCTCTGCTGCATAGACAGAGACTGGGCTGTCACTCAGTGTTTTGCTGAAGAGGCCTTCCAAGCACTCACTGACTTCAGTGATCTCCCCAACTCATTGTTTGCCTGCAATGTTCACCAGTCTGTGTTTGAAGAAGAGGAGAGCAAGGGATGA
Peptide sequence:
MRGDAYFIGMRSLGQQASIPEDGGLFFLCCIDRDWAVTQCFAEEAFQALTDFSDLPNSLFACNVHQSVFEEEESKG
IRESfinder result
IRESfinder score
0.810179199
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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