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mmu_ciGm20518_821
Basic information of circular RNA
PanCircBase ID:
mmu_ciGm20518_821
mm39_Chr. Position ID:
chr16|17676446|17677267|-
Gene name:
Gm20518
Transcript:
ENSMUST00000150068.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
821
Exon/intron sizes in nt:
821
Flanking exon/introns:
chr16:17676443-17677267
Splice length:
821
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTTGCAGACCTGCCCTAAGGCAATGCCCACTAAAGTGTTTGTTAGCCCACCTTGAGTTTGCTGCCTCACTCAGCTCTGGAAGATGCTAAGAGGACACGAATGAGGCTGCGCGTTGGCCTGCCAAGGGTATCCAGCTCCCAAGTGGTAAAGGAGACTTGGTGCCCACGTTAGCCACCCTGCAGGTTCCCAACACACCTCACAGCTTCTACCCTTGCATGGAGCTGTAGTTGTTGGTCTAAGCAGATGTGAGAAACTTGCATTAAACGCTGCCCCATCCCTACCCTCAGAAGTGTGTCCTGTGTATACTGAGCCGTACTGTCTCTTCCAGGAGGCTCCTAGTCCCCGTGCATTCAACTGTGTTTACCTAAGGCATGAACAGTGAGTGCGTAGTGCTATCCAGCTTGCCATCCTCACATACAGTATTGTGTCAACATGCCTCTGATGTGGTCCTGTGTCTTTGTTAATAAGTCAGTCACACATACTTCAAACCTAAACATGAGGATTGGGTTGGTGAGATGGCTGTTCCAGGAACCTTGGGTTTGATTACAAGCATCCACATGGTACCTCACAACCATCTGTAACTTCTAACTCCAGGACCAGGGGTCTGGCACCCTCTTCTGGCCTCTGCAGGCATGGCATACACATGGTATACAGATCCATGTAGGTAAAACACCCACATTCATAAGATGTAAATAAAAAAACACAAGCCCTAGTTCTCCAAGGTGATTCTGAAGTGTAACTGTTGTTGACACAGCACATGTAATTGCACTTCTGAAATCATGATCCTAATTTGGGGGACAACTCCCCTTCCGTTCTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTTGTTGACACAGCACA
58.18
CTTCCAGAGCTGAGTGAGGC
60.11
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTGTTGTTGACACAGCACA
58.18
TGAGGCAGCAAACTCAAGGT
59.82
151
PCR template sequence:
CCAAGGTGATTCTGAAGTGTAACTGTTGTTGACACAGCACATGTAATTGCACTTCTGAAATCATGATCCTAATTTGGGGGACAACTCCCCTTCCGTTCTTGTAAGTTGCAGACCTGCCCTAAGGCAATGCCCACTAAAGTGTTTGTTAGCCCACCTTGAGTTTGCTGCCTCACTCAGCTCTGGAAGATGCTAAGAGGACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
19
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-30e-5p(1), mmu-miR-200c-3p(1), mmu-miR-30a-5p(1), mmu-miR-130a-3p(1), mmu-miR-495-3p(1), mmu-miR-24-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-297a-5p(1), mmu-miR-301a-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-300-3p(1), mmu-miR-532-5p(1), mmu-miR-669d-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTTCCGTTCTTGTAAGTTGCAGAC
siRNA sets
TCTGCAACTTACAAGAACG, TGCAACTTACAAGAACGGA, CAACTTACAAGAACGGAAG
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
0.629144471
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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