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mmu_ciCnksr1_218
Basic information of circular RNA
PanCircBase ID:
mmu_ciCnksr1_218
mm39_Chr. Position ID:
chr4|133960794|133961012|-
Gene name:
Cnksr1
Transcript:
ENSMUST00000030645.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
218
Exon/intron sizes in nt:
218
Flanking exon/introns:
chr4:133960698-133961012
Splice length:
218
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTGGTGGAGAAAGAGCGGGCAGTCTGGAGATGAGGGACACTGAGGGAGGTCGATGGCAGAGCGGGGAAGTCACCCGAGGGTCCTGTGAAGACCAGGGCTGTGGGAGCTGCCTGGCGTGACGTGAGCCAACACAGAAAGGTCGCATGGCGACTGCTGCTGGGTGGGATCTCGGTTAAACTCGGTTAAAGGGCTCCCTGGAAGCTCCCTGAAGGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACGTGAGCCAACACAGAA
59.82
CCTCCCTCAGTGTCCCTCAT
60.33
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACGTGAGCCAACACAGAA
59.82
CATCGACCTCCCTCAGTGTC
59.54
157
PCR template sequence:
CGTGACGTGAGCCAACACAGAAAGGTCGCATGGCGACTGCTGCTGGGTGGGATCTCGGTTAAACTCGGTTAAAGGGCTCCCTGGAAGCTCCCTGAAGGTGGTGAGTGGTGGAGAAAGAGCGGGCAGTCTGGAGATGAGGGACACTGAGGGAGGTCGATGGCAGAGCGGGGAAGTCACCCGAGGGTCCTGTGAAGACCAGG
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-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-673-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCCTGAAGGTGGTGAGTGGTGGAG
siRNA sets
ACCACTCACCACCTTCAGG, CCACTCACCACCTTCAGGG, CACTCACCACCTTCAGGGA
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
0.213065838
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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