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mmu_circPik3c2a_313
Basic information of circular RNA
PanCircBase ID:
mmu_circPik3c2a_313
mm39_Chr. Position ID:
chr7|115987276|115990628|-
Gene name:
Pik3c2a
Transcript:
ENSMUST00000170430.3
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,2402,3231
Genomic length:
3352
Exon/intron sizes in nt:
80,112,121
Flanking exon/introns:
chr7:115987142-115987276|chr7:115990628-115993435
Splice length:
313
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGAGTTCTACTGTAGAAATAATTATAATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTGGATGTTGGCAGCTACATTCTGAAAGTTTGTGGTCAAGAGGAGGTTCTACAGAATAATCATTGCCTTGGAAGTCACGAACATATTCAAAATTGTCGAAAATGGGACACAGAGATTAAATTACAGCTCTTGACCTTGAGTGCAATGTGCCAGAATCTGGCTCGAACAGCAGAAGATGATGAAGCACCTGTGGATTTAAACAAATACTTGTATCAAATAGAAAAACCTTATAAAGAAGTCATGACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAATCTGGCTCGAACAG
58.35
AGCTGCCAACATCCACTTGA
59.89
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGATGATGAAGCACCTGTGGA
59.09
AGCTGCCAACATCCACTTGA
59.89
156
PCR template sequence:
GCCAGAATCTGGCTCGAACAGCAGAAGATGATGAAGCACCTGTGGATTTAAACAAATACTTGTATCAAATAGAAAAACCTTATAAAGAAGTCATGACAAGTGAGTTCTACTGTAGAAATAATTATAATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTGGATGTTGGCAGCTACATTCTGAAAGTTTGTGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(1), mmu-miR-25-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTCATGACAAGTGAGTTCTACTGT
siRNA sets
ACAGTAGAACTCACTTGTC, AGAACTCACTTGTCATGAC, GTAGAACTCACTTGTCATG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIK3C2A_313_ORF_1
0.9274
-0.012971644
0.242354349
339
ORF sequence:
ATGCAAGCCCTTTGCTGGGTACATGATGACTTGAATCAAGTGGATGTTGGCAGCTACATTCTGAAAGTTTGTGGTCAAGAGGAGGTTCTACAGAATAATCATTGCCTTGGAAGTCACGAACATATTCAAAATTGTCGAAAATGGGACACAGAGATTAAATTACAGCTCTTGACCTTGAGTGCAATGTGCCAGAATCTGGCTCGAACAGCAGAAGATGATGAAGCACCTGTGGATTTAAACAAATACTTGTATCAAATAGAAAAACCTTATAAAGAAGTCATGACAAGTGAGTTCTACTGTAGAAATAATTATAATGCAAGCCCTTTGCTGGGTACATGA
Peptide sequence:
MQALCWVHDDLNQVDVGSYILKVCGQEEVLQNNHCLGSHEHIQNCRKWDTEIKLQLLTLSAMCQNLARTAEDDEAPVDLNKYLYQIEKPYKEVMTSEFYCRNNYNASPLLGT
IRESfinder result
IRESfinder score
0.574307423
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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