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mmu_circSuco_378
Basic information of circular RNA
PanCircBase ID:
mmu_circSuco_378
mm39_Chr. Position ID:
chr1|161686918|161691594|-
Gene name:
Suco
Transcript:
ENSMUST00000048377.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,3,2
Exon/intron offsets:
0,2842,4564
Genomic length:
4676
Exon/intron sizes in nt:
15,51,11,112
Flanking exon/introns:
chr1:161685050-161686918|chr1:161691594-161703879
Splice length:
378
Other database IDs:
circAtlas: mmu-Suco_0016
Human Ortholog IDs:
Mature spliced Sequence:
GCTTCCGAGTTGGCATGTTTGCTGTAAAGAGAGTTCTTCAGCTTCAACATCATACTATTCTCAAGATGATAATTGTGCAATAGGAAGTGAAGACACACAGTTCCAGAAAAAGAATGAAAGAGAGGAACCTAGTAATGCTGAGCTATCAGGAAAATCAAATTCCTATTTAACTATATCTCCAGAAGGAAACAAAATAAAGGATGACTACACTGTGGATGTACAAGATTTGGAAACAACGAAGTTAAGCCTCCCTGTGGTTGAAGCACTCCCTACAGTTGATTTGCATGAAGAGTCTTCCAGTGTAGTTGTAGGCAGTGAAACCATTGAAAATAGTTCCAGTTCATCTACCTCAGAAAGGACTCCAGTCTCAGAGCTTGA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTGTAGTTGTAGGCAGTGA
59.7
GTGTCTTCACTTCCTATTGCACA
58.93
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGTGTAGTTGTAGGCAGTGA
59.7
TGTGTCTTCACTTCCTATTGCAC
58.93
179
PCR template sequence:
ATTTGCATGAAGAGTCTTCCAGTGTAGTTGTAGGCAGTGAAACCATTGAAAATAGTTCCAGTTCATCTACCTCAGAAAGGACTCCAGTCTCAGAGCTTGAGCTTCCGAGTTGGCATGTTTGCTGTAAAGAGAGTTCTTCAGCTTCAACATCATACTATTCTCAAGATGATAATTGTGCAATAGGAAGTGAAGACACACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-32-5p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-25-3p(1), mmu-miR-30b-5p(1), mmu-miR-363-3p(1), mmu-miR-127-5p(1), mmu-miR-98-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-202-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCAGAGCTTGAGCTTCCGAGTTGG
siRNA sets
NA
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
0.718823865
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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