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mmu_ciPpp1r13b_1076
Basic information of circular RNA
PanCircBase ID:
mmu_ciPpp1r13b_1076
mm39_Chr. Position ID:
chr12|111810179|111811255|-
Gene name:
Ppp1r13b
Transcript:
ENSMUST00000054815.15
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
1076
Exon/intron sizes in nt:
1076
Flanking exon/introns:
chr12:111810175-111811255
Splice length:
1076
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGCTGCATGCGGGCCTGGGCCCACACCCGGGCCAAGTCAGGGCAGTCCCGGTCACAATCCCAAATGGCACTGCACGTTTCTAACCCTTAACTCTCACCTGCAGCAAAGAGCTCGCTGGGTTAACTGGGGTTTTTAATTATATATTCTTCTCTGGAAAAGCTAGTCAAGTCTGAGTGAGGGTGTGTTCTAGGATGGTATTATTTGAATTCAATTTCCTGGATTTTTTAAAATATAAACTTAATTATGGTTTTTTATAGGGCACAGTAATAATTTGATGAATGTATATTACGTGTATTGCTTAATCAGGAAGTTCATAATTCTTTCTCCTTAAACTTAAAATTTTGATAAATTATGGTGATTTTTGCATATGTATGGCATTTGGTTTGTCTGTGAATAGCTCTGGACCTTTCTGTTATGGGTGATGGATTTTGTGAGGTTGCTCCAGGGGCTATAATGAGTAGTCTGGTTTTGTTAAACTACGTAAATTTCATCCATGCATTAAGATGACCATACTGCCAGGTATGGAGGCACATGCCTGTAATCCCAGCCCTTGAGAGACTATGCAGTAGCCTCATCTCAGCAGCCAGTCACTTAGGTCACACAGGTGCTTCTCTTGCTTGTCTGTGAACTCTGGGCTGTTTGTGTTTGTCTGTTTGATGTTACAGCAATGGGTAAGACCTTCACAACAAAGCTTTTATCTTGCTCTCTGGGATCTGAAGTGCTTTGACCAAACTAGCTTTTAAATGGATGCCCCTAAGGACTATTCAGTAGCTAATGGAAGCATAGTCACTGACTTGTGAGGAGTCACATCACGGCTGTCAAAGCCTGCTGGTGTTTTGCAGCCAGGTAGGCTAGAACACCCGCACAGCAAACCTAACAGAGTTTCTTCATCCCTAGCTCTTGGGAGGAAAAAACTCTGTTTTGGGTTATACATATACTGTATCTTTATTATTTTATTTTATGCATACTCTTTAATCCAAGGCTAGCATAAATAGTACCAGAATTGAGTGTAAGAATAGAAATGAAGGCAGAGTATGTTCTTTAAATAACCTGTTTTCTGTTTTGGTCATT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAAGGCTAGCATAAATAGTACCA
59.39
GCCATTTGGGATTGTGACCG
59.83
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCAAGGCTAGCATAAATAGTACCA
59.39
AAACGTGCAGTGCCATTTGG
60.25
180
PCR template sequence:
TTAATCCAAGGCTAGCATAAATAGTACCAGAATTGAGTGTAAGAATAGAAATGAAGGCAGAGTATGTTCTTTAAATAACCTGTTTTCTGTTTTGGTCATTGTATGTGCTGCATGCGGGCCTGGGCCCACACCCGGGCCAAGTCAGGGCAGTCCCGGTCACAATCCCAAATGGCACTGCACGTTTCTAACCCTTAACTCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-134-5p(1), mmu-miR-34c-5p(1), mmu-miR-335-5p(1), mmu-miR-101b-3p(1), mmu-miR-143-3p(1), mmu-miR-214-3p(1), mmu-miR-153-3p(1), mmu-miR-192-5p(1), mmu-miR-511-3p(1), mmu-miR-758-3p(1), mmu-miR-215-5p(1), mmu-miR-350-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTTTGGTCATTGTATGTGCTGCAT
siRNA sets
ATGCAGCACATACAATGAC, TGCAGCACATACAATGACC, ACATACAATGACCAAAACA
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
0.849522544
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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