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mmu_ciUsp30_464
Basic information of circular RNA
PanCircBase ID:
mmu_ciUsp30_464
mm39_Chr. Position ID:
chr5|114257159|114257623|+
Gene name:
Usp30
Transcript:
ENSMUST00000031588.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
464
Exon/intron sizes in nt:
464
Flanking exon/introns:
chr5:114257159-114257623
Splice length:
464
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACGTACTGATCCTGTGGCTTATTTGAATCTATTCCAGACACCTTTCAGTCCAAAGGGCTTTGGGTGATTTGGTGTGGCCCAGGTACTAATTGTCATTCAGATGTGTGGCTGGCTAAGCCTTTTCCACTCTGATCTAAGGTCCATGTTGTGGGGAGAGAAGGTGACAGTTTATCTCACTGAAGACTCATTGGCCTTTGGACACTTGTGTGTTGGGCACACATCTCAAACTCTAAGATTGTAGCTCTGTGTACAAATGCAGGTCCCCTCAGCTCTGCTTCTCTCCTGAGCCCGTGTGAGTGCCCTGTTCCCACTACCCCTCCCCTCCTGAGCCTGTGTGAGTGCCCTGTTCCCACTACCCCTCCCCTCCTGAGCCTGTGTGAGTGCCCTGTTCCCACTACCCCTCCCTAGTGCATGTGCTCAGCTAGCCCTCTGAGCTGTTCTAATTGCCTGCCTCTGCTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGTGCCCTGTTCCCACTAC
60.04
TACCTGGGCCACACCAAATC
59.96
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTAGTGCATGTGCTCAGCT
60.11
TACCTGGGCCACACCAAATC
59.96
146
PCR template sequence:
CCTCCTGAGCCTGTGTGAGTGCCCTGTTCCCACTACCCCTCCCTAGTGCATGTGCTCAGCTAGCCCTCTGAGCTGTTCTAATTGCCTGCCTCTGCTCTAGGTACGTACTGATCCTGTGGCTTATTTGAATCTATTCCAGACACCTTTCAGTCCAAAGGGCTTTGGGTGATTTGGTGTGGCCCAGGTACTAATTGTCATTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-26a-5p(1), mmu-miR-298-5p(1), mmu-miR-185-5p(1), mmu-miR-24-3p(1), mmu-miR-342-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1), mmu-miR-484(1)
siRNAs for circular RNA silencing
Junction sequence
GCCTCTGCTCTAGGTACGTACTGATC
siRNA sets
ATCAGTACGTACCTAGAGC, TCAGTACGTACCTAGAGCA, GATCAGTACGTACCTAGAG
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
0.840645766
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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