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mmu_circPik3c2a_783
Basic information of circular RNA
PanCircBase ID:
mmu_circPik3c2a_783
mm39_Chr. Position ID:
chr7|115977854|116005198|-
Gene name:
Pik3c2a
Transcript:
ENSMUST00000170430.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,9224,9422,11824,12653,15581,27240
Genomic length:
27344
Exon/intron sizes in nt:
14,46,48,01,12,12,11,50,000
Flanking exon/introns:
chr7:115975794-115977854|chr7:116005198-116016687
Splice length:
783
Other database IDs:
CIRCpedia: MMU_CIRCpedia_219876, circAtlas: mmu-Pik3c2a_0057
Human Ortholog IDs:
Mature spliced Sequence:
AAAGACCCAAATGGGACCAGTAGTTTGCCAACTGGAAGTTCTCTTCTACAAGAATTTGAAGTACAGAATGACGAGGTGGCAGCTTTTTGTCAATCCATTATGAAATTGAAGACCAAATTTCCATATACTGATCACTGCACAAATCCAGGCTATTTGTTAAGTCCAGTGACAGTGCAAAGAAACATGTGTGGGGAGAATGCCAGTGTGAAGGTCTCCATTGAAATTGAAGGGCTTCAACTACCAGTTACTTTTACATGTGATGTGAGTTCTACTGTAGAAATAATTATAATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTGGATGTTGGCAGCTACATTCTGAAAGTTTGTGGTCAAGAGGAGGTTCTACAGAATAATCATTGCCTTGGAAGTCACGAACATATTCAAAATTGTCGAAAATGGGACACAGAGATTAAATTACAGCTCTTGACCTTGAGTGCAATGTGCCAGAATCTGGCTCGAACAGCAGAAGATGATGAAGCACCTGTGGATTTAAACAAATACTTGTATCAAATAGAAAAACCTTATAAAGAAGTCATGACAAGACACCCTGTTGAAGAGCTCTTAGATTCCTATCACTACCAAGTAGAACTGGCTCTTCAAACTGAAAACCAGCACCGAGCTGTTGATCAAGTGATTAAAGCAGTAAGAAAAATTTGTAGTGCTTTAGATGGGGTGGAGACCCCCTCCGTTACAGAAGCAGTGAAGAAGTTAAAGCGAGCAGTTAACCTTCCAAGGAATAAAAGTGCTGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCTCCGTTACAGAAGCAG
60.11
CTGCCACCTCGTCATTCTGT
60.04
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCCTCCGTTACAGAAGCAG
60.11
CAAAAAGCTGCCACCTCGTC
60.04
159
PCR template sequence:
AATTTGTAGTGCTTTAGATGGGGTGGAGACCCCCTCCGTTACAGAAGCAGTGAAGAAGTTAAAGCGAGCAGTTAACCTTCCAAGGAATAAAAGTGCTGATAAAGACCCAAATGGGACCAGTAGTTTGCCAACTGGAAGTTCTCTTCTACAAGAATTTGAAGTACAGAATGACGAGGTGGCAGCTTTTTGTCAATCCATTA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(1), mmu-miR-25-3p(1), mmu-miR-139-5p(1), mmu-miR-3087-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TAAAAGTGCTGATAAAGACCCAAATG
siRNA sets
CATTTGGGTCTTTATCAGC,ATTTGGGTCTTTATCAGCA,TTTGGGTCTTTATCAGCAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIK3C2A_783_ORF_1
1.0014
0.023900987
0.999302017
1467
ORF sequence:
ATGAAATTGAAGACCAAATTTCCATATACTGATCACTGCACAAATCCAGGCTATTTGTTAAGTCCAGTGACAGTGCAAAGAAACATGTGTGGGGAGAATGCCAGTGTGAAGGTCTCCATTGAAATTGAAGGGCTTCAACTACCAGTTACTTTTACATGTGATGTGAGTTCTACTGTAGAAATAATTATAATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTGGATGTTGGCAGCTACATTCTGAAAGTTTGTGGTCAAGAGGAGGTTCTACAGAATAATCATTGCCTTGGAAGTCACGAACATATTCAAAATTGTCGAAAATGGGACACAGAGATTAAATTACAGCTCTTGACCTTGAGTGCAATGTGCCAGAATCTGGCTCGAACAGCAGAAGATGATGAAGCACCTGTGGATTTAAACAAATACTTGTATCAAATAGAAAAACCTTATAAAGAAGTCATGACAAGACACCCTGTTGAAGAGCTCTTAGATTCCTATCACTACCAAGTAGAACTGGCTCTTCAAACTGAAAACCAGCACCGAGCTGTTGATCAAGTGATTAAAGCAGTAAGAAAAATTTGTAGTGCTTTAGATGGGGTGGAGACCCCCTCCGTTACAGAAGCAGTGAAGAAGTTAAAGCGAGCAGTTAACCTTCCAAGGAATAAAAGTGCTGATAAAGACCCAAATGGGACCAGTAGTTTGCCAACTGGAAGTTCTCTTCTACAAGAATTTGAAGTACAGAATGACGAGGTGGCAGCTTTTTGTCAATCCATTATGAAATTGAAGACCAAATTTCCATATACTGATCACTGCACAAATCCAGGCTATTTGTTAAGTCCAGTGACAGTGCAAAGAAACATGTGTGGGGAGAATGCCAGTGTGAAGGTCTCCATTGAAATTGAAGGGCTTCAACTACCAGTTACTTTTACATGTGATGTGAGTTCTACTGTAGAAATAATTATAATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTGGATGTTGGCAGCTACATTCTGAAAGTTTGTGGTCAAGAGGAGGTTCTACAGAATAATCATTGCCTTGGAAGTCACGAACATATTCAAAATTGTCGAAAATGGGACACAGAGATTAAATTACAGCTCTTGACCTTGAGTGCAATGTGCCAGAATCTGGCTCGAACAGCAGAAGATGATGAAGCACCTGTGGATTTAAACAAATACTTGTATCAAATAGAAAAACCTTATAAAGAAGTCATGACAAGACACCCTGTTGAAGAGCTCTTAGATTCCTATCACTACCAAGTAGAACTGGCTCTTCAAACTGAAAACCAGCACCGAGCTGTTGATCAAGTGATTAAAGCAGTAAGAAAAATTTGTAGTGCTTTAGATGGGGTGGAGACCCCCTCCGTTACAGAAGCAGTGAAGAAGTTAAAGCGAGCAGTTAACCTTCCAAGGAATAAAAGTGCTGAT
Peptide sequence:
MKLKTKFPYTDHCTNPGYLLSPVTVQRNMCGENASVKVSIEIEGLQLPVTFTCDVSSTVEIIIMQALCWVHDDLNQVDVGSYILKVCGQEEVLQNNHCLGSHEHIQNCRKWDTEIKLQLLTLSAMCQNLARTAEDDEAPVDLNKYLYQIEKPYKEVMTRHPVEELLDSYHYQVELALQTENQHRAVDQVIKAVRKICSALDGVETPSVTEAVKKLKRAVNLPRNKSADKDPNGTSSLPTGSSLLQEFEVQNDEVAAFCQSIMKLKTKFPYTDHCTNPGYLLSPVTVQRNMCGENASVKVSIEIEGLQLPVTFTCDVSSTVEIIIMQALCWVHDDLNQVDVGSYILKVCGQEEVLQNNHCLGSHEHIQNCRKWDTEIKLQLLTLSAMCQNLARTAEDDEAPVDLNKYLYQIEKPYKEVMTRHPVEELLDSYHYQVELALQTENQHRAVDQVIKAVRKICSALDGVETPSVTEAVKKLKRAVNLPRNKSAD
IRESfinder result
IRESfinder score
0.653262161
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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