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mmu_circCep350_404
Basic information of circular RNA
PanCircBase ID:
mmu_circCep350_404
mm39_Chr. Position ID:
chr1|155784949|155787022|-
Gene name:
Cep350
Transcript:
ENSMUST00000138762.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
21,20,19
Exon/intron offsets:
0,1414,1932
Genomic length:
2073
Exon/intron sizes in nt:
126,137,141
Flanking exon/introns:
chr1:155782398-155784949|chr1:155787022-155787633
Splice length:
404
Other database IDs:
CIRCpedia: MMU_CIRCpedia_10657, circAtlas: mmu-Cep350_0030
Human Ortholog IDs:
Mature spliced Sequence:
GTCCATGCAGAATCTTTACAGCAGGTGGTTAAATCACAAAGAGAAGTGACTGAAGTCCTCCAGGAAGCAACTTGTAAAATAGCAGCTCAGCAATCAGAGACCGCGCGCCTCACCACAGATGCAGCGCGGCAGATCTGTGAGATGGCAGAACTAACTCGAACACACCTCGCAGATGCCATCACAACTTCTGGAGTTCCCCTAGCAACACTGTACGACCACCAGCGGCAGCATTTTCCAGACTTCATGAGAAAACTGAGGACCAAAGCTGAAACAGATAGGATAAGTCATTCTGCTTCACACTCCCAGAGTAAAGAAGGCGCTGTGGACTCCAAGCGGCAGAAGTTCTCCCCTTCCCGTGACAGTTACTCTGAGTCTTCAAGATACAAGAGTCATGATTACCGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGAAGTTCTCCCCTTCCC
60.03
TCTCTGATTGCTGAGCTGCT
59.1
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAGAAGTTCTCCCCTTCC
60.03
TCTCTGATTGCTGAGCTGCT
59.1
170
PCR template sequence:
AGAGTAAAGAAGGCGCTGTGGACTCCAAGCGGCAGAAGTTCTCCCCTTCCCGTGACAGTTACTCTGAGTCTTCAAGATACAAGAGTCATGATTACCGGAGGTCCATGCAGAATCTTTACAGCAGGTGGTTAAATCACAAAGAGAAGTGACTGAAGTCCTCCAGGAAGCAACTTGTAAAATAGCAGCTCAGCAATCAGAGA
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-9-5p(1), mmu-miR-122-5p(1), mmu-miR-138-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-680(1)
siRNAs for circular RNA silencing
Junction sequence
ATGATTACCGGAGGTCCATGCAGAAT
siRNA sets
ATTCTGCATGGACCTCCGG, CATGGACCTCCGGTAATCA, ATGGACCTCCGGTAATCAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCEP350_404_ORF_1
0.671
0.17011455
0.255937046
312
ORF sequence:
ATGGCAGAACTAACTCGAACACACCTCGCAGATGCCATCACAACTTCTGGAGTTCCCCTAGCAACACTGTACGACCACCAGCGGCAGCATTTTCCAGACTTCATGAGAAAACTGAGGACCAAAGCTGAAACAGATAGGATAAGTCATTCTGCTTCACACTCCCAGAGTAAAGAAGGCGCTGTGGACTCCAAGCGGCAGAAGTTCTCCCCTTCCCGTGACAGTTACTCTGAGTCTTCAAGATACAAGAGTCATGATTACCGGAGGTCCATGCAGAATCTTTACAGCAGGTGGTTAAATCACAAAGAGAAGTGA
Peptide sequence:
MAELTRTHLADAITTSGVPLATLYDHQRQHFPDFMRKLRTKAETDRISHSASHSQSKEGAVDSKRQKFSPSRDSYSESSRYKSHDYRRSMQNLYSRWLNHKEK
IRESfinder result
IRESfinder score
0.518124473
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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