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mmu_circRnf103_256
Basic information of circular RNA
PanCircBase ID:
mmu_circRnf103_256
mm39_Chr. Position ID:
chr6|71473814|71482833|+
Gene name:
Rnf103
Transcript:
ENSMUST00000064637.11
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,8903
Genomic length:
9019
Exon/intron sizes in nt:
1,40,116
Flanking exon/introns:
chr6:71471872-71473814|chr6:71482833-71485852
Splice length:
256
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGACTTGATGGAAGGTGAACTCTATTCTGCTCTTAAGGAAGAAGAGGCATCTGAGTCTGTTTCTAGTACCAATTTCAGTGGTGAAATGCATTTCTATGAGCTTGTGGAAGACACAAAAGATGGCATCTGGCTGGTTCAGGTCATAGCAAATGACAGAAGTCCTTTGGTGGGTAAAATCCACTGGGAGAAAATGGTGAAAAAAGTGTCAAGATTTGGAATACGGACAGGCACTTTCAACTGTTCCAGTGATCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCACTGGGAGAAAATGGTGA
58.94
ACAGACTCAGATGCCTCTTCT
58.18
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCACTGGGAGAAAATGGTGA
58.94
ACAGACTCAGATGCCTCTTCTT
58.83
140
PCR template sequence:
GAAGTCCTTTGGTGGGTAAAATCCACTGGGAGAAAATGGTGAAAAAAGTGTCAAGATTTGGAATACGGACAGGCACTTTCAACTGTTCCAGTGATCCCAGGTGACTTGATGGAAGGTGAACTCTATTCTGCTCTTAAGGAAGAAGAGGCATCTGAGTCTGTTTCTAGTACCAATTTCAGTGGTGAAATGCATTTCTATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-93-5p(1), mmu-miR-106b-5p(1), mmu-miR-467b-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGTGATCCCAGGTGACTTGATGGA
siRNA sets
AAGTCACCTGGGATCACTG, TCAAGTCACCTGGGATCAC, CAAGTCACCTGGGATCACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRNF103_256_ORF_1
0.835
0.108541651
0.191544858
252
ORF sequence:
ATGGAAGGTGAACTCTATTCTGCTCTTAAGGAAGAAGAGGCATCTGAGTCTGTTTCTAGTACCAATTTCAGTGGTGAAATGCATTTCTATGAGCTTGTGGAAGACACAAAAGATGGCATCTGGCTGGTTCAGGTCATAGCAAATGACAGAAGTCCTTTGGTGGGTAAAATCCACTGGGAGAAAATGGTGAAAAAAGTGTCAAGATTTGGAATACGGACAGGCACTTTCAACTGTTCCAGTGATCCCAGGTGA
Peptide sequence:
MEGELYSALKEEEASESVSSTNFSGEMHFYELVEDTKDGIWLVQVIANDRSPLVGKIHWEKMVKKVSRFGIRTGTFNCSSDPR
IRESfinder result
IRESfinder score
0.545283956
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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