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mmu_ciGm28177_392
Basic information of circular RNA
PanCircBase ID:
mmu_ciGm28177_392
mm39_Chr. Position ID:
chr1|52161880|52162272|+
Gene name:
Gm28177
Transcript:
ENSMUST00000185516.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
392
Exon/intron sizes in nt:
392
Flanking exon/introns:
chr1:52161880-52162272
Splice length:
392
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGAAAACTCGCTGGCTAGGGAGTAGAGTTAATGCCTTAAAAGTATTTGTTGATGAAGTAGCTTGGAGATGTGTTTACAGAACGTGACTATCACCAGTGGCCATAAAACCAAATTCTTTAGCCATTAAGTACTTTCCAGTCTGTTTTAAAACATATTATTTGCAAATGGCAAAATTTTTAAATGATCTGAAAATATTTGACATAGAAAGCTCAGACCCCTGCTGACTCTTTTCTTTCTGGAGATAAATACCACAGACAGTTTTTTCTGTACAAATGTCTGGCACTTCCTATACTTTTTTCATGTCAGTTGTGTGTGATAGAAACACTACGCGAATTGCTAATAAAACAAGGTCAGGTTAAAACGCAAAGCTAAATTCCCGCTGTTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAACACTACGCGAATTGCT
58.59
CACGTTCTGTAAACACATCTCCA
58.94
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAACACTACGCGAATTGCT
58.59
GTCACGTTCTGTAAACACATCTCC
59.85
162
PCR template sequence:
ATACTTTTTTCATGTCAGTTGTGTGTGATAGAAACACTACGCGAATTGCTAATAAAACAAGGTCAGGTTAAAACGCAAAGCTAAATTCCCGCTGTTGTAGGTAAGGAAAACTCGCTGGCTAGGGAGTAGAGTTAATGCCTTAAAAGTATTTGTTGATGAAGTAGCTTGGAGATGTGTTTACAGAACGTGACTATCACCAG
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-30c-5p(1), mmu-miR-30d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCGCTGTTGTAGGTAAGGAAAACTC
siRNA sets
TTTTCCTTACCTACAACAG,TTCCTTACCTACAACAGCG,CCTTACCTACAACAGCGGG
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
0.766940048
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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