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mmu_circSetd2_663
Basic information of circular RNA
PanCircBase ID:
mmu_circSetd2_663
mm39_Chr. Position ID:
chr9|110402679|110403342|+
Gene name:
Setd2
Transcript:
ENSMUST00000153838.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
12
Exon/intron offsets:
0
Genomic length:
663
Exon/intron sizes in nt:
663
Flanking exon/introns:
chr9:110401134-110402679|chr9:110403342-110419455
Splice length:
663
Other database IDs:
circBase: mmu_circ_0015303, CIRCpedia: MMU_CIRCpedia_2921, circAtlas: mmu-Setd2_0001
circBase: hsa_circ_0065160, circAtlas: hsa-SETD2_0007, CIRCpedia: HSA_CIRCpedia_147938
Human Ortholog IDs:
Mature spliced Sequence:
ATTATAAAGACTTTGGAGCATTTGCCCATTCCTACTAAAAATATGTTGGAAGAAAGCAAAGTACTTCCAATTATTCAGCGCTGGTCTCAAACTAAGACTGCTGTTCCTCAGTTAAGTGAAGGAGACGGGTATTCTAGTGAGAATACATCACGTGCTCACACACCGCTTAATACACCGGACCCTTCTGCCAAGCCGAGCACGGAAATGGATACAGATACTCCCAAGAAACTCATATTCCGCAGACTGAAGATTATAAGTGAAAATAGCATGGACAGTGCAGTCTCGGACGTCACTAGTGAGCTAGAATGCAAGGATGGCAAAGAGGACCTTGATCAGTTAGAGACTGTCACTGTGGAAGAGGATGAAGAGCTGCAGTCCCAGCAGCTCCTCCCACAGCAGCTGTGCGAGTCCAAAGTTGAGAGTGAAGCCACTATTGAAGTCAGTAAGTTACCCACATCTGAACCGGAGGCAGACACGGAGACAGAGCCCAAAGACAGCAATGGCACAAAACTAGAAGAAACTATTGCTGAGGAAACACCATCCCAAGATGAAGAAGAGGGAGTGTCTGATGTTGAAAGTGAGAGAAGCCAGGAGCCACCAGATAAAACAGTGGATATAAGTGATTTGGCTACCAAGTTACTAGACAGTTGGAAAGATCTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCAGGAGCCACCAGATAAA
59.74
AGTTTGAGACCAGCGCTGAA
59.89
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCAGGAGCCACCAGATAA
60.62
AGTTTGAGACCAGCGCTGAA
59.89
171
PCR template sequence:
GTCTGATGTTGAAAGTGAGAGAAGCCAGGAGCCACCAGATAAAACAGTGGATATAAGTGATTTGGCTACCAAGTTACTAGACAGTTGGAAAGATCTAAAGATTATAAAGACTTTGGAGCATTTGCCCATTCCTACTAAAAATATGTTGGAAGAAAGCAAAGTACTTCCAATTATTCAGCGCTGGTCTCAAACTAAGACTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-149-5p(2), mmu-miR-128-3p(1), mmu-miR-362-5p(1), mmu-miR-705(1), mmu-miR-29b-2-5p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAAGATCTAAAGATTATAAAGACTT
siRNA sets
AAGTCTTTATAATCTTTAG, TTTATAATCTTTAGATCTT, TATAATCTTTAGATCTTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSETD2_663_ORF_1
1.1508
0.263715321
0.999261362
1284
ORF sequence:
ATGTTGGAAGAAAGCAAAGTACTTCCAATTATTCAGCGCTGGTCTCAAACTAAGACTGCTGTTCCTCAGTTAAGTGAAGGAGACGGGTATTCTAGTGAGAATACATCACGTGCTCACACACCGCTTAATACACCGGACCCTTCTGCCAAGCCGAGCACGGAAATGGATACAGATACTCCCAAGAAACTCATATTCCGCAGACTGAAGATTATAAGTGAAAATAGCATGGACAGTGCAGTCTCGGACGTCACTAGTGAGCTAGAATGCAAGGATGGCAAAGAGGACCTTGATCAGTTAGAGACTGTCACTGTGGAAGAGGATGAAGAGCTGCAGTCCCAGCAGCTCCTCCCACAGCAGCTGTGCGAGTCCAAAGTTGAGAGTGAAGCCACTATTGAAGTCAGTAAGTTACCCACATCTGAACCGGAGGCAGACACGGAGACAGAGCCCAAAGACAGCAATGGCACAAAACTAGAAGAAACTATTGCTGAGGAAACACCATCCCAAGATGAAGAAGAGGGAGTGTCTGATGTTGAAAGTGAGAGAAGCCAGGAGCCACCAGATAAAACAGTGGATATAAGTGATTTGGCTACCAAGTTACTAGACAGTTGGAAAGATCTAAAGATTATAAAGACTTTGGAGCATTTGCCCATTCCTACTAAAAATATGTTGGAAGAAAGCAAAGTACTTCCAATTATTCAGCGCTGGTCTCAAACTAAGACTGCTGTTCCTCAGTTAAGTGAAGGAGACGGGTATTCTAGTGAGAATACATCACGTGCTCACACACCGCTTAATACACCGGACCCTTCTGCCAAGCCGAGCACGGAAATGGATACAGATACTCCCAAGAAACTCATATTCCGCAGACTGAAGATTATAAGTGAAAATAGCATGGACAGTGCAGTCTCGGACGTCACTAGTGAGCTAGAATGCAAGGATGGCAAAGAGGACCTTGATCAGTTAGAGACTGTCACTGTGGAAGAGGATGAAGAGCTGCAGTCCCAGCAGCTCCTCCCACAGCAGCTGTGCGAGTCCAAAGTTGAGAGTGAAGCCACTATTGAAGTCAGTAAGTTACCCACATCTGAACCGGAGGCAGACACGGAGACAGAGCCCAAAGACAGCAATGGCACAAAACTAGAAGAAACTATTGCTGAGGAAACACCATCCCAAGATGAAGAAGAGGGAGTGTCTGATGTTGAAAGTGAGAGAAGCCAGGAGCCACCAGATAAAACAGTGGATATAAGTGATTTGGCTACCAAGTTACTAGACAGTTGGAAAGATCTAAAG
Peptide sequence:
MLEESKVLPIIQRWSQTKTAVPQLSEGDGYSSENTSRAHTPLNTPDPSAKPSTEMDTDTPKKLIFRRLKIISENSMDSAVSDVTSELECKDGKEDLDQLETVTVEEDEELQSQQLLPQQLCESKVESEATIEVSKLPTSEPEADTETEPKDSNGTKLEETIAEETPSQDEEEGVSDVESERSQEPPDKTVDISDLATKLLDSWKDLKIIKTLEHLPIPTKNMLEESKVLPIIQRWSQTKTAVPQLSEGDGYSSENTSRAHTPLNTPDPSAKPSTEMDTDTPKKLIFRRLKIISENSMDSAVSDVTSELECKDGKEDLDQLETVTVEEDEELQSQQLLPQQLCESKVESEATIEVSKLPTSEPEADTETEPKDSNGTKLEETIAEETPSQDEEEGVSDVESERSQEPPDKTVDISDLATKLLDSWKDLK
IRESfinder result
IRESfinder score
0.411306521
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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