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mmu_circPten_534
Basic information of circular RNA
PanCircBase ID:
mmu_circPten_534
mm39_Chr. Position ID:
chr19|32789095|32795460|+
Gene name:
Pten
Transcript:
ENSMUST00000013807.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,7,8
Exon/intron offsets:
0,3721,6140
Genomic length:
6365
Exon/intron sizes in nt:
142,167,225
Flanking exon/introns:
chr19:32777499-32789095|chr19:32795460-32797242
Splice length:
534
Other database IDs:
circAtlas: mmu-Pten_0007
circAtlas: hsa-PTEN_0007, CIRCpedia: HSA_CIRCpedia_375915
Human Ortholog IDs:
Mature spliced Sequence:
GGAGTCACAATTCCCAGTCAGAGGCGCTATGTATATTATTATAGCTACCTGCTAAAAAATCACCTGGATTACAGACCCGTGGCACTGCTGTTTCACAAGATGATGTTTGAAACTATTCCAATGTTCAGTGGCGGAACTTGCAATCCTCAGTTTGTGGTCTGCCAGCTAAAGGTGAAGATATATTCCTCCAATTCAGGACCCACGCGGCGGGAGGACAAGTTCATGTACTTTGAGTTCCCTCAGCCATTGCCTGTGTGTGGTGATATCAAAGTAGAGTTCTTCCACAAACAGAACAAGATGCTCAAAAAGGACAAAATGTTTCACTTTTGGGTAAATACGTTCTTCATACCAGGACCAGAGGAAACCTCAGAAAAAGTGGAAAATGGAAGTCTTTGTGATCAGGAAATCGATAGCATTTGCAGTATAGAGCGTGCAGATAATGACAAGGAGTATCTTGTACTCACCCTAACAAAAAACGATCTTGACAAAGCAAACAAAGACAAGGCCAACCGATACTTCTCTCCAAATTTTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAAACAAAGACAAGGCCA
58.52
GTGAAACAGCAGTGCCACG
60.01
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAAACAAAGACAAGGCCAA
59.17
GTGAAACAGCAGTGCCACG
60.01
142
PCR template sequence:
AGATAATGACAAGGAGTATCTTGTACTCACCCTAACAAAAAACGATCTTGACAAAGCAAACAAAGACAAGGCCAACCGATACTTCTCTCCAAATTTTAAGGGAGTCACAATTCCCAGTCAGAGGCGCTATGTATATTATTATAGCTACCTGCTAAAAAATCACCTGGATTACAGACCCGTGGCACTGCTGTTTCACAAGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-185-5p(1), mmu-miR-377-3p(1), mmu-miR-5101(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCCAAATTTTAAGGGAGTCACAATTC
siRNA sets
ATTGTGACTCCCTTAAAAT, TGACTCCCTTAAAATTTGG, AATTGTGACTCCCTTAAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTEN_534_ORF_1
0.9804
0.191581488
0.987016784
969
ORF sequence:
ATGATGTTTGAAACTATTCCAATGTTCAGTGGCGGAACTTGCAATCCTCAGTTTGTGGTCTGCCAGCTAAAGGTGAAGATATATTCCTCCAATTCAGGACCCACGCGGCGGGAGGACAAGTTCATGTACTTTGAGTTCCCTCAGCCATTGCCTGTGTGTGGTGATATCAAAGTAGAGTTCTTCCACAAACAGAACAAGATGCTCAAAAAGGACAAAATGTTTCACTTTTGGGTAAATACGTTCTTCATACCAGGACCAGAGGAAACCTCAGAAAAAGTGGAAAATGGAAGTCTTTGTGATCAGGAAATCGATAGCATTTGCAGTATAGAGCGTGCAGATAATGACAAGGAGTATCTTGTACTCACCCTAACAAAAAACGATCTTGACAAAGCAAACAAAGACAAGGCCAACCGATACTTCTCTCCAAATTTTAAGGGAGTCACAATTCCCAGTCAGAGGCGCTATGTATATTATTATAGCTACCTGCTAAAAAATCACCTGGATTACAGACCCGTGGCACTGCTGTTTCACAAGATGATGTTTGAAACTATTCCAATGTTCAGTGGCGGAACTTGCAATCCTCAGTTTGTGGTCTGCCAGCTAAAGGTGAAGATATATTCCTCCAATTCAGGACCCACGCGGCGGGAGGACAAGTTCATGTACTTTGAGTTCCCTCAGCCATTGCCTGTGTGTGGTGATATCAAAGTAGAGTTCTTCCACAAACAGAACAAGATGCTCAAAAAGGACAAAATGTTTCACTTTTGGGTAAATACGTTCTTCATACCAGGACCAGAGGAAACCTCAGAAAAAGTGGAAAATGGAAGTCTTTGTGATCAGGAAATCGATAGCATTTGCAGTATAGAGCGTGCAGATAATGACAAGGAGTATCTTGTACTCACCCTAACAAAAAACGATCTTGACAAAGCAAACAAAGACAAGGCCAACCGATACTTCTCTCCAAATTTTAAG
Peptide sequence:
MMFETIPMFSGGTCNPQFVVCQLKVKIYSSNSGPTRREDKFMYFEFPQPLPVCGDIKVEFFHKQNKMLKKDKMFHFWVNTFFIPGPEETSEKVENGSLCDQEIDSICSIERADNDKEYLVLTLTKNDLDKANKDKANRYFSPNFKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIPMFSGGTCNPQFVVCQLKVKIYSSNSGPTRREDKFMYFEFPQPLPVCGDIKVEFFHKQNKMLKKDKMFHFWVNTFFIPGPEETSEKVENGSLCDQEIDSICSIERADNDKEYLVLTLTKNDLDKANKDKANRYFSPNFK
IRESfinder result
IRESfinder score
0.706903252
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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