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mmu_circ6030443J06Rik_270
Basic information of circular RNA
PanCircBase ID:
mmu_circ6030443J06Rik_270
mm39_Chr. Position ID:
chr5|22868669|22899888|+
Gene name:
6030443J06Rik
Transcript:
ENSMUST00000195898.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,31008
Genomic length:
31219
Exon/intron sizes in nt:
59,211
Flanking exon/introns:
chr5:22787480-22868669|chr5:22899888-22905899
Splice length:
270
Other database IDs:
CIRCpedia: MMU_CIRCpedia_13594, circAtlas: mmu-6030443J06Rik_0002
Human Ortholog IDs:
Mature spliced Sequence:
CCCTGAGATGTCTACAGAACCTCCAAATACTCTGTTTTATTTAAAGCAAGACAAAAGGGATTCCAAAGTGAAGAGGAACGTGCCCTCCTCGATGAACGCCTGTGGAAGCCTTTGAGCAGCCCTTTCATGGCGGAAGAGAGGGCAACTCTGAGGTGATGGAGCAGCGGCTAGGCAGAGGGCTGCTGAGGAAGCAGAGGGAGGATCGCTTCAGCTCTCGGCAGGCTGGAGCCTCAGAGCAAACCTCAAGTAACTTTCTGTGGATGCTGTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGATCGCTTCAGCTCTC
59.97
GGGCACGTTCCTCTTCACTT
60.25
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGATCGCTTCAGCTCTCG
60.32
GGGCACGTTCCTCTTCACTT
60.25
158
PCR template sequence:
GGCAGAGGGCTGCTGAGGAAGCAGAGGGAGGATCGCTTCAGCTCTCGGCAGGCTGGAGCCTCAGAGCAAACCTCAAGTAACTTTCTGTGGATGCTGTGAGCCCTGAGATGTCTACAGAACCTCCAAATACTCTGTTTTATTTAAAGCAAGACAAAAGGGATTCCAAAGTGAAGAGGAACGTGCCCTCCTCGATGAACGCC
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-211-5p(2), mmu-miR-204-5p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGATGCTGTGAGCCCTGAGATGTCT
siRNA sets
ACATCTCAGGGCTCACAGC,AGACATCTCAGGGCTCACA,CATCTCAGGGCTCACAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.258778895
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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