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mmu_circPpip5k2_343
Basic information of circular RNA
PanCircBase ID:
mmu_circPpip5k2_343
mm39_Chr. Position ID:
chr1|97680428|97683696|-
Gene name:
Ppip5k2
Transcript:
ENSMUST00000042509.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,2351,3182
Genomic length:
3268
Exon/intron sizes in nt:
102,155,86
Flanking exon/introns:
chr1:97678453-97680428|chr1:97683696-97684568
Splice length:
343
Other database IDs:
circAtlas: mmu-Ppip5k2_0008
Human Ortholog IDs:
Mature spliced Sequence:
AAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATTGAAGGAGAAGATCATGTAGAAGTGAATGGGGAAGTTTTCCAAAAGCCCTTTGTGGAGAAGCCGGTCAGTGCAGAGGACCACAATGTTTACATTTATTATCCAACATCCGCCGGAGGTGGGAGTCAGAGACTTTTCCGGAAGATTGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCCCCAGAGAGCAACGTTC
59.97
CGGTTCAGGATTGCATACCG
59.06
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAACGTTCGAAAAACGGG
59.97
GGATCACGGTTCAGGATTGC
58.98
141
PCR template sequence:
TGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAGAAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATT
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-136-5p(1), mmu-miR-532-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTGATGTTAAGAAGAGACGTGTAT
siRNA sets
ATACACGTCTCTTCTTAAC, TACACGTCTCTTCTTAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPIP5K2_343_ORF_1
0.7163
0.051447394
0.582147852
561
ORF sequence:
ATGGGGAAGTTTTCCAAAAGCCCTTTGTGGAGAAGCCGGTCAGTGCAGAGGACCACAATGTTTACATTTATTATCCAACATCCGCCGGAGGTGGGAGTCAGAGACTTTTCCGGAAGATTGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAGAAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATTGAAGGAGAAGATCATGTAGAAGTGAATGGGGAAGTTTTCCAAAAGCCCTTTGTGGAGAAGCCGGTCAGTGCAGAGGACCACAATGTTTACATTTATTATCCAACATCCGCCGGAGGTGGGAGTCAGAGACTTTTCCGGAAGATTGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAG
Peptide sequence:
MGKFSKSPLWRSRSVQRTTMFTFIIQHPPEVGVRDFSGRLAVEVVCIPQRATFEKRGHIYMKSLCLQMVLMLRRDVYSILQAEGILLPRYAILNRDPNNPKECNLIEGEDHVEVNGEVFQKPFVEKPVSAEDHNVYIYYPTSAGGGSQRLFRKIGSRSSVYSPESNVRKTGSYIYEEFMPTDGTDVK
IRESfinder result
IRESfinder score
0.489908341
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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