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mmu_circPtk2_382
Basic information of circular RNA
PanCircBase ID:
mmu_circPtk2_382
mm39_Chr. Position ID:
chr15|73214981|73237044|-
Gene name:
Ptk2
Transcript:
ENSMUST00000227569.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,3
Exon/intron offsets:
0,21908
Genomic length:
22063
Exon/intron sizes in nt:
227,155
Flanking exon/introns:
chr15:73202864-73214981|chr15:73237044-73266496
Splice length:
382
Other database IDs:
CIRCpedia: MMU_CIRCpedia_212692, circAtlas: mmu-Ptk2_0079
circAtlas: hsa-PTK2_0190, CIRCpedia: HSA_CIRCpedia_60285
Human Ortholog IDs:
Mature spliced Sequence:
GTAGTTAGCGCCTTCTCCAGCTTCCTGCAGCATGACAGAAGAGAGATACAGCAGTTGTTTCAAAGCTGGCAGGGAGGTGAACAGTGGTCCTACCAGCACTTTTGGGAGATTGTTGTACTAGGAAGCTGCTTGTTTGTTGTCTTTGCTTTCAGAAGAATATGACAGATACCTAGCATCTAGCAAAAGAATGGCAGCTGCTTATCTTGACCCAAACTTGAATCACACACCAAGTTCGAGTACTAAGACTCACCTGGGTACTGGCATGGAACGGTCCCCTGGTGCAATGGAACGAGTATTAAAGGTCTTTCATTATTTTGAAAGCAGTAGTGAGCCAACCACCTGGGCCAGTATTATCAGGCATGGAGATGCTACTGATGTCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGTAGTGAGCCAACCAC
59.96
GACCACTGTTCACCTCCCTG
59.96
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTAGTGAGCCAACCACCTGG
60.32
GACCACTGTTCACCTCCCTG
59.96
148
PCR template sequence:
AATGGAACGAGTATTAAAGGTCTTTCATTATTTTGAAAGCAGTAGTGAGCCAACCACCTGGGCCAGTATTATCAGGCATGGAGATGCTACTGATGTCAGGGTAGTTAGCGCCTTCTCCAGCTTCCTGCAGCATGACAGAAGAGAGATACAGCAGTTGTTTCAAAGCTGGCAGGGAGGTGAACAGTGGTCCTACCAGCACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-7b-5p(1), mmu-miR-200c-3p(1), mmu-miR-106b-5p(1), mmu-miR-495-3p(1), mmu-miR-301a-3p(1), mmu-miR-369-3p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TACTGATGTCAGGGTAGTTAGCGCCT
siRNA sets
CTAACTACCCTGACATCAG, TAACTACCCTGACATCAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTK2_382_ORF_1
0.6432
-0.03618454
0.162929918
357
ORF sequence:
ATGGCAGCTGCTTATCTTGACCCAAACTTGAATCACACACCAAGTTCGAGTACTAAGACTCACCTGGGTACTGGCATGGAACGGTCCCCTGGTGCAATGGAACGAGTATTAAAGGTCTTTCATTATTTTGAAAGCAGTAGTGAGCCAACCACCTGGGCCAGTATTATCAGGCATGGAGATGCTACTGATGTCAGGGTAGTTAGCGCCTTCTCCAGCTTCCTGCAGCATGACAGAAGAGAGATACAGCAGTTGTTTCAAAGCTGGCAGGGAGGTGAACAGTGGTCCTACCAGCACTTTTGGGAGATTGTTGTACTAGGAAGCTGCTTGTTTGTTGTCTTTGCTTTCAGAAGAATATGA
Peptide sequence:
MAAAYLDPNLNHTPSSSTKTHLGTGMERSPGAMERVLKVFHYFESSSEPTTWASIIRHGDATDVRVVSAFSSFLQHDRREIQQLFQSWQGGEQWSYQHFWEIVVLGSCLFVVFAFRRI
IRESfinder result
IRESfinder score
0.58415944
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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