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mmu_ciPtbp1_739
Basic information of circular RNA
PanCircBase ID:
mmu_ciPtbp1_739
mm39_Chr. Position ID:
chr10|79696803|79697542|+
Gene name:
Ptbp1
Transcript:
ENSMUST00000172282.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
739
Exon/intron sizes in nt:
739
Flanking exon/introns:
chr10:79696803-79697847
Splice length:
739
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGGGTATTGCTGTGCTCTGCTTATACATGGAGTAGTGGTGGGGTGCTGACTGACCACAAGTCAGGGTGGGGGAGCATACTGGATGGCAAGCAGGGTTTCTGGGTGTCCCAGGCGCCGTGTGGGTATAGGCGTGCTGCCCCTCTATCTGCCACTGCTGGCCTCCGCTCCTTCCCAGCTGCTCTGAGGTTTTCTGTTTTCCTCTCAGCTCCATTCGCACCCTGGCCCTCAGTGCTCAGAGCCGCGGTGTTTTTCTTGCTGTACAGACAGTCTGTTAATTTGGGGCATGGCAAGGAGGCCTGGGAGTGCCGGTCGGAAGGGAGGTGGTGGCTCAGGCTTGTGCTGACCAGGCAGTCTCTGGCTGGTGCTCTGTAGAGCCCAGGTAGCCCTTGAGGCTCAGCATTGCCTTTCCAGGAACAGGTCTGTGCACGCAGTGCCTCAGGCTGCTCTTTGGCTCTGGTGGAGCTCCATGCCGGCCCTGTTCCAGCCAGTTCTCTCTGGCTCAGCCTGAGTCCCGAGCTCAGCCTGCCACCTGGGAACTAACAGGCACCACTCCTTGCCTCAGTCCTTAGTCTCAGCCGCAGTGCTGACCCACGGTCCTCCGGCCTGCGTGCAGTGCTTCTCCTTGCATGTGTGAATGTGTGTGTGTGAGAGTGTGTGGGTACGTGCGTGCGTGCGTGCAGAACACTGCCTCGTTTCCTACGTATTTACTGACCTGTGTTTTGCTACTTTTTTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTGTGAGAGTGTGTGGG
59.82
ACCCCACCACTACTCCATGT
60.18
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGTGTGAGAGTGTGTGGGT
59.82
ACCCCACCACTACTCCATGT
60.18
143
PCR template sequence:
ATGTGTGTGTGTGAGAGTGTGTGGGTACGTGCGTGCGTGCGTGCAGAACACTGCCTCGTTTCCTACGTATTTACTGACCTGTGTTTTGCTACTTTTTTCTGTATGTGGGTATTGCTGTGCTCTGCTTATACATGGAGTAGTGGTGGGGTGCTGACTGACCACAAGTCAGGGTGGGGGAGCATACTGGATGGCAAGCAGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-146a-5p(1), mmu-miR-181b-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-300-3p(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTACTTTTTTCTGTATGTGGGTATT
siRNA sets
ACATACAGAAAAAAGTAGC, AATACCCACATACAGAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIPTBP1_739_ORF_1
0.5512
-0.104852183
0.224583255
477
ORF sequence:
ATGTGTGTGTGTGAGAGTGTGTGGGTACGTGCGTGCGTGCGTGCAGAACACTGCCTCGTTTCCTACGTATTTACTGACCTGTGTTTTGCTACTTTTTTCTGTATGTGGGTATTGCTGTGCTCTGCTTATACATGGAGTAGTGGTGGGGTGCTGACTGACCACAAGTCAGGGTGGGGGAGCATACTGGATGGCAAGCAGGGTTTCTGGGTGTCCCAGGCGCCGTGTGGGTATAGGCGTGCTGCCCCTCTATCTGCCACTGCTGGCCTCCGCTCCTTCCCAGCTGCTCTGAGGTTTTCTGTTTTCCTCTCAGCTCCATTCGCACCCTGGCCCTCAGTGCTCAGAGCCGCGGTGTTTTTCTTGCTGTACAGACAGTCTGTTAATTTGGGGCATGGCAAGGAGGCCTGGGAGTGCCGGTCGGAAGGGAGGTGGTGGCTCAGGCTTGTGCTGACCAGGCAGTCTCTGGCTGGTGCTCTGTAG
Peptide sequence:
MCVCESVWVRACVRAEHCLVSYVFTDLCFATFFCMWVLLCSAYTWSSGGVLTDHKSGWGSILDGKQGFWVSQAPCGYRRAAPLSATAGLRSFPAALRFSVFLSAPFAPWPSVLRAAVFFLLYRQSVNLGHGKEAWECRSEGRWWLRLVLTRQSLAGAL
IRESfinder result
IRESfinder score
0.615541679
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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