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mmu_circPpip5k2_1002
Basic information of circular RNA
PanCircBase ID:
mmu_circPpip5k2_1002
mm39_Chr. Position ID:
chr1|97672887|97683696|-
Gene name:
Ppip5k2
Transcript:
ENSMUST00000042509.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,232,1255,2384,4379,5404,7541,9892,10723
Genomic length:
10809
Exon/intron sizes in nt:
110,76,87,102,122,162,102,155,86
Flanking exon/introns:
chr1:97671867-97672887|chr1:97683696-97684568
Splice length:
1002
Other database IDs:
circAtlas: mmu-Ppip5k2_0022
Human Ortholog IDs:
Mature spliced Sequence:
AAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATTGAAGGAGAAGATCATGTAGAAGTGAATGGGGAAGTTTTCCAAAAGCCCTTTGTGGAGAAGCCGGTCAGTGCAGAGGACCACAATGTTTACATTTATTATCCAACATCCGCCGGAGGTGGGAGTCAGAGACTTTTCCGGAAGATTGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAGGTTTATACCGTGGGTCCAGACTATGCACATGCTGAAGCTCGAAAATCTCCAGCTCTCGATGGCAAGGTAGAGCGAGACAGCGAAGGGAAGGAAGTAAGATACCCCGTCATCCTCAATGCACGGGAGAAGCTGATTGCGTGGAAAGTCTGCCTTGCTTTTAAGCAAACGGTTTGTGGCTTTGATTTGTTACGTGCCAATGGACAATCCTATGTATGCGATGTCAATGGCTTCAGTTTTGTGAAAAATTCCATGAAGTACTATGATGACTGTGCAAAAATTCTTGGCAATATCGTAATGCGGGAGCTTGCACCACAGTTTCATATCCCGTGGTCAATACCATTAGAAGCTGAAGATATTCCAATTGTACCAACTACCTCTGGAACTATGATGGAACTTCGATGTGTCATCGCTGTGATACGACATGGGGATCGAACACCGAAACAGAAAATGAAAATGGAAGTGAGGCATCAGAAGTTTTTTGACCTTTTTGAAAAGTGTGATGGATATAAATCAGGGAAGTTAAAGCTCAAGAAGCCAAAACAATTACAGGAAGTCCTGGATATTGCAAGGCAGCTTCTTATGGAGCTGGGGCAAAATAATGACTCTGAAATTGAAGAAAACAAGTCAAAACTTGAACAACTTAAGACTGTGTTAGAGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAAGGCAGCTTCTTATGGA
60
ACCGAGGAAGTAGGATGCCT
60.03
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCAGCTTCTTATGGAGCT
58.79
ACCGAGGAAGTAGGATGCCT
60.03
142
PCR template sequence:
ATATTGCAAGGCAGCTTCTTATGGAGCTGGGGCAAAATAATGACTCTGAAATTGAAGAAAACAAGTCAAAACTTGAACAACTTAAGACTGTGTTAGAGATAAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
17
Interacting miRNAs (#binding sites)
mmu-miR-153-3p(2), mmu-let-7a-5p(1), mmu-let-7e-5p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-196a-5p(1), mmu-let-7d-5p(1), mmu-miR-136-5p(1), mmu-miR-96-5p(1), mmu-miR-382-5p(1), mmu-miR-425-5p(1), mmu-miR-98-5p(1), mmu-miR-673-5p(1), mmu-miR-335-3p(1), mmu-miR-532-5p(1), mmu-miR-670-5p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTGTTAGAGATAAGAGACGTGTAT
siRNA sets
ATACACGTCTCTTATCTCT, TACACGTCTCTTATCTCTA, TCTCTTATCTCTAACACAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPPIP5K2_1002_ORF_1
1.0687
0.191526874
0.999935402
1686
ORF sequence:
ATGCCTACAGATGGTACTGATGTTAAGGTTTATACCGTGGGTCCAGACTATGCACATGCTGAAGCTCGAAAATCTCCAGCTCTCGATGGCAAGGTAGAGCGAGACAGCGAAGGGAAGGAAGTAAGATACCCCGTCATCCTCAATGCACGGGAGAAGCTGATTGCGTGGAAAGTCTGCCTTGCTTTTAAGCAAACGGTTTGTGGCTTTGATTTGTTACGTGCCAATGGACAATCCTATGTATGCGATGTCAATGGCTTCAGTTTTGTGAAAAATTCCATGAAGTACTATGATGACTGTGCAAAAATTCTTGGCAATATCGTAATGCGGGAGCTTGCACCACAGTTTCATATCCCGTGGTCAATACCATTAGAAGCTGAAGATATTCCAATTGTACCAACTACCTCTGGAACTATGATGGAACTTCGATGTGTCATCGCTGTGATACGACATGGGGATCGAACACCGAAACAGAAAATGAAAATGGAAGTGAGGCATCAGAAGTTTTTTGACCTTTTTGAAAAGTGTGATGGATATAAATCAGGGAAGTTAAAGCTCAAGAAGCCAAAACAATTACAGGAAGTCCTGGATATTGCAAGGCAGCTTCTTATGGAGCTGGGGCAAAATAATGACTCTGAAATTGAAGAAAACAAGTCAAAACTTGAACAACTTAAGACTGTGTTAGAGATAAGAGACGTGTATAGCATTCTTCAAGCTGAAGGCATCCTACTTCCTCGGTATGCAATCCTGAACCGTGATCCAAATAACCCGAAAGAATGCAACCTGATTGAAGGAGAAGATCATGTAGAAGTGAATGGGGAAGTTTTCCAAAAGCCCTTTGTGGAGAAGCCGGTCAGTGCAGAGGACCACAATGTTTACATTTATTATCCAACATCCGCCGGAGGTGGGAGTCAGAGACTTTTCCGGAAGATTGGCAGTAGAAGTAGTGTGTATTCCCCAGAGAGCAACGTTCGAAAAACGGGGTCATATATATATGAAGAGTTTATGCCTACAGATGGTACTGATGTTAAGGTTTATACCGTGGGTCCAGACTATGCACATGCTGAAGCTCGAAAATCTCCAGCTCTCGATGGCAAGGTAGAGCGAGACAGCGAAGGGAAGGAAGTAAGATACCCCGTCATCCTCAATGCACGGGAGAAGCTGATTGCGTGGAAAGTCTGCCTTGCTTTTAAGCAAACGGTTTGTGGCTTTGATTTGTTACGTGCCAATGGACAATCCTATGTATGCGATGTCAATGGCTTCAGTTTTGTGAAAAATTCCATGAAGTACTATGATGACTGTGCAAAAATTCTTGGCAATATCGTAATGCGGGAGCTTGCACCACAGTTTCATATCCCGTGGTCAATACCATTAGAAGCTGAAGATATTCCAATTGTACCAACTACCTCTGGAACTATGATGGAACTTCGATGTGTCATCGCTGTGATACGACATGGGGATCGAACACCGAAACAGAAAATGAAAATGGAAGTGAGGCATCAGAAGTTTTTTGACCTTTTTGAAAAGTGTGATGGATATAAATCAGGGAAGTTAAAGCTCAAGAAGCCAAAACAATTACAGGAAGTCCTGGATATTGCAAGGCAGCTTCTTATGGAGCTGGGGCAAAATAATGACTCTGAAATTGAAGAAAACAAGTCAAAACTTGAACAACTTAAGACTGTGTTAGAG
Peptide sequence:
MPTDGTDVKVYTVGPDYAHAEARKSPALDGKVERDSEGKEVRYPVILNAREKLIAWKVCLAFKQTVCGFDLLRANGQSYVCDVNGFSFVKNSMKYYDDCAKILGNIVMRELAPQFHIPWSIPLEAEDIPIVPTTSGTMMELRCVIAVIRHGDRTPKQKMKMEVRHQKFFDLFEKCDGYKSGKLKLKKPKQLQEVLDIARQLLMELGQNNDSEIEENKSKLEQLKTVLEIRDVYSILQAEGILLPRYAILNRDPNNPKECNLIEGEDHVEVNGEVFQKPFVEKPVSAEDHNVYIYYPTSAGGGSQRLFRKIGSRSSVYSPESNVRKTGSYIYEEFMPTDGTDVKVYTVGPDYAHAEARKSPALDGKVERDSEGKEVRYPVILNAREKLIAWKVCLAFKQTVCGFDLLRANGQSYVCDVNGFSFVKNSMKYYDDCAKILGNIVMRELAPQFHIPWSIPLEAEDIPIVPTTSGTMMELRCVIAVIRHGDRTPKQKMKMEVRHQKFFDLFEKCDGYKSGKLKLKKPKQLQEVLDIARQLLMELGQNNDSEIEENKSKLEQLKTVLE
IRESfinder result
IRESfinder score
0.45909414
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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