top of page
mmu_ciDek_268
Basic information of circular RNA
PanCircBase ID:
mmu_ciDek_268
mm39_Chr. Position ID:
chr13|47241684|47241952|-
Gene name:
Dek
Transcript:
ENSMUST00000138401.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
268
Exon/intron sizes in nt:
268
Flanking exon/introns:
chr13:47241649-47241952
Splice length:
268
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTACATTAGAAATGATGACAGCAACTGTCAGCGTGCAGCATATGCATGCATGTGCATGCTTCAAGTGGATGTATGAGATAATAAACTTCAGAGAACATTGGGGGATAGTAGCATGCTGGTTTTCAAAGCTAAAAAAAATTTCAGTGCATGCTTTCTTTGCAATCTTAAGGTCAAAAAATTTTAAAACTAAACATGATTTATAGTTGGCCTTATGCTCTTTTGAAAACTTAAAAACTCTTCCATCTTACACCTTGTTATTCATAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TAGTTGGCCTTATGCTCTTTTGA
58.08
ACATCCACTTGAAGCATGCAC
59.46
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTGGCCTTATGCTCTTTTGA
58.23
TACATCCACTTGAAGCATGCAC
59.25
140
PCR template sequence:
GGTCAAAAAATTTTAAAACTAAACATGATTTATAGTTGGCCTTATGCTCTTTTGAAAACTTAAAAACTCTTCCATCTTACACCTTGTTATTCATAAAAAGGTACATTAGAAATGATGACAGCAACTGTCAGCGTGCAGCATATGCATGCATGTGCATGCTTCAAGTGGATGTATGAGATAATAAACTTCAGAGAACATTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
TATTCATAAAAAGGTACATTAGAAAT
siRNA sets
TAATGTACCTTTTTATGAA, AATGTACCTTTTTATGAAT, TTTCTAATGTACCTTTTTA
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
0.850547836
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page