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mmu_ciSlc9a8_1196
Basic information of circular RNA
PanCircBase ID:
mmu_ciSlc9a8_1196
mm39_Chr. Position ID:
chr2|167309687|167310883|+
Gene name:
Slc9a8
Transcript:
ENSMUST00000139673.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
10
Exon/intron offsets:
0
Genomic length:
1196
Exon/intron sizes in nt:
1196
Flanking exon/introns:
chr2:167309687-167313301
Splice length:
1196
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTACTTTTCTTATTTTTCATATTGAATGGCTTATTTTTAAAATAGTAACTACATGGTTTGGAATCATTTATGTAACTGTTAACAGTTCAGAGGCAACAACTACAGAAATGTGCTTCTATAGAAAAGTTTTTGTGTTTATAAGATCTCAGTGTTTACAGTTTCAGTGACCTTGGGTGCTGTGGTTTCCTTTAAATCGTAGTTTTAGGCAGGGCATGGCAGTGGTGCCTATAACCCCAGTACTTGGGAGATGGAGGCAGGAGGATCAAAGAGTTTAAGGATAGCTGAGTGGTGGTGGCACCTGTCTTTAACCCCAGCCCTCAGGAAGCAGAGGCAGGCAGGCCTCTGTGAGTCCAAGGCCATCCTGGTCTATGGTGCAAGTTTCAGACCAACCAGGGTGACACAGTGAAACCCTGTCTCAAAGACAGTAAAAGGTTTTAACTATATGTCGTGTTCAACAACAGCCTAGGCTCCATGTCTCAAAAAAAAAAAAAAAAAAAAAAAAGGAGAAATGTGACCAACTGCAAGAGATCCCAAGTCTCTTGGGCCCTTTTGTGTCCTGTCTCCATCCCCATTGTGACTTCCTTTAGAGCAGCAGCCTGCCTATGTCACAGTCTGTCCTATGAGCACAGGTTGGGGACACCTTGGAAAGGCCTTCCATAGAAAGTTGTACTGGTTTTTGAGTTGCAGGATCCAATCCAGGGCCTTGTGCACATGCAGATGCTCCTCCCACTCCCTCCCGAATTGTGTGGAACGTGGAGCCGTAGTTGATTACCTGAGTCACCTTTGTGCTCCCAGCCGGAGCTCACTCAGCCCACCCTACTTGCTCTGAGGAGCCAGACCACACCAGAGACTGAGGTGCCTGACTGCCCTCACCTGACTCTACAGTGCCCCTAGGGGGAAAAATTAGCATACGCCTTCGCCAGTATGGAGTCTTGGCTGTCCCTTAGCTCATCTCTAGGCACAGCTGGGAGCTAGTCTGTGCTCACCTTTATTTTGGGGCTGTGTGACTAAAGCTTGCTAGTGAGTGATGCTTGCTAGTCTCTTCTCTCCAAAGCTTCATCCAGGCAGAGCCAGGGCAGCATTGTGCTGTTGTCTTTTATGGCCAAGGACAAGGCTGTCTTAGGTGTGCTACACTGTGTTAGCTTGAAGACGCAGTGGATTCCACCTATACTGGGCACGTTGACATTGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGGCTGTCTTAGGTGTGCT
58.94
TGATTCCAAACCATGTAGTTACT
55.58
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGGCTGTCTTAGGTGTGC
58.84
TGATTCCAAACCATGTAGTTACT
55.58
153
PCR template sequence:
TCTTTTATGGCCAAGGACAAGGCTGTCTTAGGTGTGCTACACTGTGTTAGCTTGAAGACGCAGTGGATTCCACCTATACTGGGCACGTTGACATTGGCAGGTAAGTACTTTTCTTATTTTTCATATTGAATGGCTTATTTTTAAAATAGTAACTACATGGTTTGGAATCATTTATGTAACTGTTAACAGTTCAGAGGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-185-5p(1), mmu-miR-483-5p(1), mmu-miR-224-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGACATTGGCAGGTAAGTACTTTTC
siRNA sets
GAAAAGTACTTACCTGCCA, AAAGTACTTACCTGCCAAT, AAGTACTTACCTGCCAATG
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
0.771791853
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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