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mmu_ciKdm5c_66
Basic information of circular RNA
PanCircBase ID:
mmu_ciKdm5c_66
mm39_Chr. Position ID:
chrX|151050996|151051062|+
Gene name:
Kdm5c
Transcript:
ENSMUST00000112584.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
18
Exon/intron offsets:
0
Genomic length:
66
Exon/intron sizes in nt:
66
Flanking exon/introns:
chrX:151050996-151051760
Splice length:
66
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGGAGAGGTGGGTTTAGGTAAGACAGGGTGCATGTGTGAGAAAATAGTGCAAAGTATGAGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGTGAGAAAATAGTGCAAAGT
56.91
CCCTGTCTTACCTAAACCCACC
60.03
62
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGTGTGAGAAAATAGTGCAAAGT
58.56
CCCTGTCTTACCTAAACCCACC
60.03
64
PCR template sequence:
CATGTGTGAGAAAATAGTGCAAAGTATGAGCAAGTGAGGAGAGGTGGGTTTAGGTAAGACAGGGTG
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-339-5p(1), mmu-miR-10b-5p(1), mmu-miR-342-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGTATGAGCAAGTGAGGAGAGGTG
siRNA sets
CACCTCTCCTCACTTGCTC
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
0.277414048
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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