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mmu_circPpp1cb_464
Basic information of circular RNA
PanCircBase ID:
mmu_circPpp1cb_464
mm39_Chr. Position ID:
chr5|32640703|32645049|+
Gene name:
Ppp1cb
Transcript:
ENSMUST00000015100.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
4,5,6,7
Exon/intron offsets:
0,1899,2521,4211
Genomic length:
4346
Exon/intron sizes in nt:
10,57,21,52,135
Flanking exon/introns:
chr5:32638264-32640703|chr5:32645049-32648297
Splice length:
464
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTAAACGAAGATTTAATATTAAATTGTGGAAGACATTCACTGATTGTTTTAACTGTCTGCCTATAGCTGCTATTGTTGATGAGAAAATCTTCTGTTGTCATGGAGGACTGTCACCAGACCTACAATCTATGGAACAGATTCGGAGAATTATGAGACCCACTGACGTACCTGATACAGGTTTGCTTTGTGACTTACTGTGGTCCGACCCAGATAAGGATGTGCAAGGCTGGGGAGAAAATGACCGTGGTGTTTCTTTTACTTTTGGAGCTGATGTAGTCAGTAAATTTCTGAATCGTCATGATTTAGACTTGATTTGTCGAGCTCATCAGGTGGTGGAAGACGGATATGAATTTTTTGCTAAACGACAGTTGGTAACCTTATTTTCTGCCCCAAATTACTGTGGCGAGTTTGACAATGCTGGTGGTATGATGAGTGTGGATGAGACTTTGATGTGTTCATTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCCCAAATTACTGTGGC
59.47
AGCAGCTATAGGCAGACAGT
58.21
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGCCCCAAATTACTGTGGC
59.47
AGCAGCTATAGGCAGACAGTT
58.89
151
PCR template sequence:
ACAGTTGGTAACCTTATTTTCTGCCCCAAATTACTGTGGCGAGTTTGACAATGCTGGTGGTATGATGAGTGTGGATGAGACTTTGATGTGTTCATTCCAGGTAAACGAAGATTTAATATTAAATTGTGGAAGACATTCACTGATTGTTTTAACTGTCTGCCTATAGCTGCTATTGTTGATGAGAAAATCTTCTGTTGTCA
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-350-3p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GTGTTCATTCCAGGTAAACGAAGATT
siRNA sets
AATCTTCGTTTACCTGGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPP1CB_464_ORF_1
0.8783
-0.01960002
0.307750876
402
ORF sequence:
ATGGAACAGATTCGGAGAATTATGAGACCCACTGACGTACCTGATACAGGTTTGCTTTGTGACTTACTGTGGTCCGACCCAGATAAGGATGTGCAAGGCTGGGGAGAAAATGACCGTGGTGTTTCTTTTACTTTTGGAGCTGATGTAGTCAGTAAATTTCTGAATCGTCATGATTTAGACTTGATTTGTCGAGCTCATCAGGTGGTGGAAGACGGATATGAATTTTTTGCTAAACGACAGTTGGTAACCTTATTTTCTGCCCCAAATTACTGTGGCGAGTTTGACAATGCTGGTGGTATGATGAGTGTGGATGAGACTTTGATGTGTTCATTCCAGGTAAACGAAGATTTAATATTAAATTGTGGAAGACATTCACTGATTGTTTTAACTGTCTGCCTATAG
Peptide sequence:
MEQIRRIMRPTDVPDTGLLCDLLWSDPDKDVQGWGENDRGVSFTFGADVVSKFLNRHDLDLICRAHQVVEDGYEFFAKRQLVTLFSAPNYCGEFDNAGGMMSVDETLMCSFQVNEDLILNCGRHSLIVLTVCL
IRESfinder result
IRESfinder score
0.74053883
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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