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mmu_circPpip5k2_1027
Basic information of circular RNA
PanCircBase ID:
mmu_circPpip5k2_1027
mm39_Chr. Position ID:
chr1|97680428|97689546|-
Gene name:
Ppip5k2
Transcript:
ENSMUST00000042509.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
7,6,5,4,3,2
Exon/intron offsets:
0,2351,3182,4140,6465,8721
Genomic length:
9118
Exon/intron sizes in nt:
1,02,15,58,69,11,96,390
Flanking exon/introns:
chr1:97678453-97680428|chr1:97689546-97697579
Splice length:
1027
Other database IDs:
circAtlas: mmu-Ppip5k2_0045
Human Ortholog IDs:
Mature spliced Sequence:
GTAAAAGGAGGATATCTGTTCCAACCCGGGCAAGCAGCAGCCTCATTGTCCTTGCGTTTTAAACTACAACAGCAATTGGGAGTTCAACAATGAAGCAATGATATCTGAGAACAAAGGAACACTGGCCAACTAAATGTCAGCACATTTCATGCGATTGGGTGAAAACACTGCAGCAGACCTGGGTGTCAGCTGGCAGCCTGAGAATGTGCTCTTCTGACACCATTTATCTGAAGCAGCTTTAGTATAGACTATTTAAACTTTATGTATGTCAAATTCAAGAAAAATGAGTGAACCCCCCAGATTCTTTGTTGGGCCCGAAGATGCGGAAATCAATCCTGGAAACTATCGTCGCTTCTTCCACCATGCTGAAGAGGAGGAGGAGGAGGAGGATGAGTCTCCACCAGAAAGGCAGATTGTGGTTGGAATATGTTCCATGGCAAAGAAATCCAAATCCAAACCCATGAAGGAAATTCTGGAACGGATCTCCTTGTTTAAGTACATCACAGTAGTGGTTTTTGAAGAGGAAATTATTTTGAATGAACCCGTGGAAAACTGGCCTTTATGTGATTGTCTTATTTCTTTCCATTCTAAAGGATTTCCACTGGACAAAGCAGTTGCCTATGCAAAACTCAGGAATCCATTTGTAATCAATGACTTGAATATGCAGTATCTCATACAAGATAGAAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATTGAAGGAGAAGATCATGTAGAAGTGAATGGGGAAGTTTTCCAAAAGCCCTTTGTGGAGAAGCCGGTCAGTGCAGAGGACCACAATGTTTACATTTATTATCCAACATCCGCCGGAGGTGGGAGTCAGAGACTTTTCCGGAAGATTGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTATTCCCCAGAGAGCAACG
59.79
AACGCAAGGACAATGAGGCT
60.25
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTATTCCCCAGAGAGCAACGT
59.79
AACGCAAGGACAATGAGGCT
60.25
140
PCR template sequence:
TGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAGGTAAAAGGAGGATATCTGTTCCAACCCGGGCAAGCAGCAGCCTCATTGTCCTTGCGTTTTAAACTACAACAGCAATTGGGAGTTCAACAATGAAGCAATG
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-199a-5p(1), mmu-miR-320-3p(1), mmu-miR-136-5p(1), mmu-miR-377-3p(1), mmu-miR-207(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTGATGTTAAGGTAAAAGGAGGAT
siRNA sets
ATCCTCCTTTTACCTTAAC, TTTTACCTTAACATCAGTA, CTTTTACCTTAACATCAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPIP5K2_1027_ORF_1
0.9709
0.113967747
0.95892205
855
ORF sequence:
ATGTCAAATTCAAGAAAAATGAGTGAACCCCCCAGATTCTTTGTTGGGCCCGAAGATGCGGAAATCAATCCTGGAAACTATCGTCGCTTCTTCCACCATGCTGAAGAGGAGGAGGAGGAGGAGGATGAGTCTCCACCAGAAAGGCAGATTGTGGTTGGAATATGTTCCATGGCAAAGAAATCCAAATCCAAACCCATGAAGGAAATTCTGGAACGGATCTCCTTGTTTAAGTACATCACAGTAGTGGTTTTTGAAGAGGAAATTATTTTGAATGAACCCGTGGAAAACTGGCCTTTATGTGATTGTCTTATTTCTTTCCATTCTAAAGGATTTCCACTGGACAAAGCAGTTGCCTATGCAAAACTCAGGAATCCATTTGTAATCAATGACTTGAATATGCAGTATCTCATACAAGATAGAAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATTGAAGGAGAAGATCATGTAGAAGTGAATGGGGAAGTTTTCCAAAAGCCCTTTGTGGAGAAGCCGGTCAGTGCAGAGGACCACAATGTTTACATTTATTATCCAACATCCGCCGGAGGTGGGAGTCAGAGACTTTTCCGGAAGATTGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAGGTAAAAGGAGGATATCTGTTCCAACCCGGGCAAGCAGCAGCCTCATTGTCCTTGCGTTTTAAACTACAACAGCAATTGGGAGTTCAACAATGA
Peptide sequence:
MSNSRKMSEPPRFFVGPEDAEINPGNYRRFFHHAEEEEEEEDESPPERQIVVGICSMAKKSKSKPMKEILERISLFKYITVVVFEEEIILNEPVENWPLCDCLISFHSKGFPLDKAVAYAKLRNPFVINDLNMQYLIQDRRDVYSILQAEGILLPRYAILNRDPNNPKECNLIEGEDHVEVNGEVFQKPFVEKPVSAEDHNVYIYYPTSAGGGSQRLFRKIGSRSSVYSPESNVRKTGSYIYEEFMPTDGTDVKVKGGYLFQPGQAAASLSLRFKLQQQLGVQQ
IRESfinder result
IRESfinder score
0.614436644
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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