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mmu_circPi4ka_1301
Basic information of circular RNA
PanCircBase ID:
mmu_circPi4ka_1301
mm39_Chr. Position ID:
chr16|17102310|17117433|-
Gene name:
Pi4ka
Transcript:
ENSMUST00000036161.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
47,46,45,44,43,42,41,40,39,38,37,36
Exon/intron offsets:
0,149,760,2205,6668,8433,9396,10925,12449,12763,13104,14995
Genomic length:
15123
Exon/intron sizes in nt:
7,17,37,11,30,12,15,41,00,00,00,00,00,00,000
Flanking exon/introns:
chr16:17101273-17102310|chr16:17117433-17118856
Splice length:
1301
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGTCCACCAAAGTTTCCTACTCAAGGAGAAAAGAGGCTTCGTGAAGATATAAGCATAATGATTAAGTTTTGGACTGCCATGTTCTCAGATAAGAAGTACCTGACTGCCAGCCAGCTCGTTCCCCCAGATAATCAGGACACCCGAAGCAACTTGGATATAACTGTGGGCTCTCGACAACAGGCTACCCAGGGCTGGATCAACACTTACCCCCTCTCCAGTGGCATGTCAACCATCTCCAAAAAGTCAGGTATGTCTAAGAAAACCAACCGGGGCTCCCAGCTGCACAAGTACTACATGAAACGCAGGACACTGCTGCTGTCACTATTGGCCACTGAGATCGAACGCCTCATCACTTGGTACAACCCACTGTCAGCCCCAGAGCTAGAGCTGGACCAGGCAGGAGAGAACAGCGTTGCCAACTGGAGGTCCAAGTACATCAGCTTGAGTGAGAAGCAGTGGAAGGACAACGTGAACCTTGCCTGGAGCATCTCTCCATACCTCGCTGTGCAGCTGCCAGCCAGGTTCAAGAATACAGAAGCCATTGGAAATGAAGTGACCCGTCTCGTTCGCTTGGATCCTGGAGCTGTTAGTGATGTCCCTGAAGCCATCAAGTTCCTTGTCACCTGGCACACCATCGATGCTGATGCTCCAGAGCTCAGCCATGTTTTATGCTGGGCACCCACGGACCCACCTACAGGCCTCTCCTACTTCTCCAGCATGTACCCACCACACCCTCTCACTGCACAGTATGGGGTAAAAGTCCTGCGATCCTTCCCTCCGGATGCCATTCTGTTCTACATCCCCCAGATTGTGCAGGCCCTCAGATATGACAAGATGGGCTATGTGCGTGAGTACATTCTCTGGGCTGCAGCCAAATCCCAGCTTCTGGCACACCAGTTTATTTGGAACATGAAAACTAACATCTACCTTGATGAAGAAGGGCACCAGAAAGACCCTGACATCGGTGACCTCCTGGAGCAGTTAGTAGAAGAGATCACAGGGTCTCTATCAGGCCCAGCCAAAGATTTCTATCAACGGGAATTTGATTTCTTTAACAAGATCACAAACGTGTCAGCCATCATCAAGCCCTACCCTAAAGGCGATGAAAGGAAGAAGGCTTGTCTGTCAGCTCTGTCTGAAGTGAAGGTGCAGCCTGGCTGCTACCTGCCCAGCAACCCTGAAGCAATCGTGCTAGACATTGACTACAAGTCAGGGACACCAATGCAGAGTGCCGCAAAAGCGCCGTATCTGGCCAAGTTTAAGGTGAAGAGATGCGGAGTGAGTGAACTTGAAAAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGACACCAATGCAGAGTG
59.96
ATCTGAGAACATGGCAGTCC
57.29
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AATGCAGAGTGCCGCAAAAG
60.04
ATCTGAGAACATGGCAGTCC
57.29
171
PCR template sequence:
GACTACAAGTCAGGGACACCAATGCAGAGTGCCGCAAAAGCGCCGTATCTGGCCAAGTTTAAGGTGAAGAGATGCGGAGTGAGTGAACTTGAAAAAGAAGTTGTCCACCAAAGTTTCCTACTCAAGGAGAAAAGAGGCTTCGTGAAGATATAAGCATAATGATTAAGTTTTGGACTGCCATGTTCTCAGATAAGAAGTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-10a-5p(1), mmu-miR-182-5p(1), mmu-miR-705(1), mmu-miR-369-3p(1), mmu-miR-670-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTGAAAAAGAAGTTGTCCACCAAAG
siRNA sets
TTTGGTGGACAACTTCTTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPI4KA_1301_ORF_1
1.048
0.353806006
0.999415344
1296
ORF sequence:
ATGATTAAGTTTTGGACTGCCATGTTCTCAGATAAGAAGTACCTGACTGCCAGCCAGCTCGTTCCCCCAGATAATCAGGACACCCGAAGCAACTTGGATATAACTGTGGGCTCTCGACAACAGGCTACCCAGGGCTGGATCAACACTTACCCCCTCTCCAGTGGCATGTCAACCATCTCCAAAAAGTCAGGTATGTCTAAGAAAACCAACCGGGGCTCCCAGCTGCACAAGTACTACATGAAACGCAGGACACTGCTGCTGTCACTATTGGCCACTGAGATCGAACGCCTCATCACTTGGTACAACCCACTGTCAGCCCCAGAGCTAGAGCTGGACCAGGCAGGAGAGAACAGCGTTGCCAACTGGAGGTCCAAGTACATCAGCTTGAGTGAGAAGCAGTGGAAGGACAACGTGAACCTTGCCTGGAGCATCTCTCCATACCTCGCTGTGCAGCTGCCAGCCAGGTTCAAGAATACAGAAGCCATTGGAAATGAAGTGACCCGTCTCGTTCGCTTGGATCCTGGAGCTGTTAGTGATGTCCCTGAAGCCATCAAGTTCCTTGTCACCTGGCACACCATCGATGCTGATGCTCCAGAGCTCAGCCATGTTTTATGCTGGGCACCCACGGACCCACCTACAGGCCTCTCCTACTTCTCCAGCATGTACCCACCACACCCTCTCACTGCACAGTATGGGGTAAAAGTCCTGCGATCCTTCCCTCCGGATGCCATTCTGTTCTACATCCCCCAGATTGTGCAGGCCCTCAGATATGACAAGATGGGCTATGTGCGTGAGTACATTCTCTGGGCTGCAGCCAAATCCCAGCTTCTGGCACACCAGTTTATTTGGAACATGAAAACTAACATCTACCTTGATGAAGAAGGGCACCAGAAAGACCCTGACATCGGTGACCTCCTGGAGCAGTTAGTAGAAGAGATCACAGGGTCTCTATCAGGCCCAGCCAAAGATTTCTATCAACGGGAATTTGATTTCTTTAACAAGATCACAAACGTGTCAGCCATCATCAAGCCCTACCCTAAAGGCGATGAAAGGAAGAAGGCTTGTCTGTCAGCTCTGTCTGAAGTGAAGGTGCAGCCTGGCTGCTACCTGCCCAGCAACCCTGAAGCAATCGTGCTAGACATTGACTACAAGTCAGGGACACCAATGCAGAGTGCCGCAAAAGCGCCGTATCTGGCCAAGTTTAAGGTGAAGAGATGCGGAGTGAGTGAACTTGAAAAAGAAGTTGTCCACCAAAGTTTCCTACTCAAGGAGAAAAGAGGCTTCGTGAAGATATAA
Peptide sequence:
MIKFWTAMFSDKKYLTASQLVPPDNQDTRSNLDITVGSRQQATQGWINTYPLSSGMSTISKKSGMSKKTNRGSQLHKYYMKRRTLLLSLLATEIERLITWYNPLSAPELELDQAGENSVANWRSKYISLSEKQWKDNVNLAWSISPYLAVQLPARFKNTEAIGNEVTRLVRLDPGAVSDVPEAIKFLVTWHTIDADAPELSHVLCWAPTDPPTGLSYFSSMYPPHPLTAQYGVKVLRSFPPDAILFYIPQIVQALRYDKMGYVREYILWAAAKSQLLAHQFIWNMKTNIYLDEEGHQKDPDIGDLLEQLVEEITGSLSGPAKDFYQREFDFFNKITNVSAIIKPYPKGDERKKACLSALSEVKVQPGCYLPSNPEAIVLDIDYKSGTPMQSAAKAPYLAKFKVKRCGVSELEKEVVHQSFLLKEKRGFVKI
IRESfinder result
IRESfinder score
0.498953184
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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