top of page
mmu_circYkt6_184
Basic information of circular RNA
PanCircBase ID:
mmu_circYkt6_184
mm39_Chr. Position ID:
chr11|5909296|5911288|+
Gene name:
Ykt6
Transcript:
ENSMUST00000002818.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,1891
Genomic length:
1992
Exon/intron sizes in nt:
83,101
Flanking exon/introns:
chr11:5906004-5909296|chr11:5911288-5912336
Splice length:
184
Other database IDs:
circAtlas: mmu-Ykt6_0011
Human Ortholog IDs:
Mature spliced Sequence:
TGTGCAGGAATTCATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTTGCCATGTCTACGTCCGGAGCGACAGTCTGGCAGGTGTGGTCATTGCTGACAGCGAATACCCTTCCAGAGTGGCCTTCACCTTGCTGGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGCAGGTGTGGTCATTG
60.25
AGAAGCTCTGCTGCCTTTCC
60.32
137
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTGGCAGGTGTGGTCATT
60.25
AGAAGCTCTGCTGCCTTTCC
60.32
138
PCR template sequence:
GCCATGTCTACGTCCGGAGCGACAGTCTGGCAGGTGTGGTCATTGCTGACAGCGAATACCCTTCCAGAGTGGCCTTCACCTTGCTGGAGAAGTGTGCAGGAATTCATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTT
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
CTTGCTGGAGAAGTGTGCAGGAATTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCYKT6_184_ORF_1
0.5167
0.083452608
0.154701976
312
ORF sequence:
ATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTTGCCATGTCTACGTCCGGAGCGACAGTCTGGCAGGTGTGGTCATTGCTGACAGCGAATACCCTTCCAGAGTGGCCTTCACCTTGCTGGAGAAGTGTGCAGGAATTCATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTTGCCATGTCTACGTCCGGAGCGACAGTCTGGCAGGTGTGGTCATTGCTGA
Peptide sequence:
MTFTSQLIVERSGKGSRASVKEQEYLCHVYVRSDSLAGVVIADSEYPSRVAFTLLEKCAGIHDLYKSTDCGTLGERQQSFCQRTRVSLPCLRPERQSGRCGHC
IRESfinder result
IRESfinder score
0.463832979
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page