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mmu_circYkt6_457
Basic information of circular RNA
PanCircBase ID:
mmu_circYkt6_457
mm39_Chr. Position ID:
chr11|5909296|5914662|+
Gene name:
Ykt6
Transcript:
ENSMUST00000002818.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
2,3,4,5,6
Exon/intron offsets:
0,1891,3040,3396,5264
Genomic length:
5366
Exon/intron sizes in nt:
83,10,11,05,66,102
Flanking exon/introns:
chr11:5906004-5909296|chr11:5914662-5916008
Splice length:
457
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24570, circAtlas: mmu-Ykt6_0002
Human Ortholog IDs:
Mature spliced Sequence:
TGTGCAGGAATTCATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTTGCCATGTCTACGTCCGGAGCGACAGTCTGGCAGGTGTGGTCATTGCTGACAGCGAATACCCTTCCAGAGTGGCCTTCACCTTGCTGGAGAAGGTACTAGATGAATTCTCCAAGCAGGTGGATAGAATAGACTGGCCAGTAGGATCCCCGGCTACAATCCAGTACACAGGCCTGGACGATCACCTTAGTAAATACCAGAACCCCCGAGAAGCTGATCCCATGAGTAAAGTGCAGGCCGAACTGGACGAGACCAAAATCATTCTGCACAACACCATGGAGTCTTTGTTAGAGCGAGGCGAGAAGCTTGATGACCTGGTATCCAAGTCAGAAGTGCTGGGAACACAGTCGAAAGCCTTCTATAAAACT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTAGAGCGAGGCGAGAAG
59.55
AGAAGCTCTGCTGCCTTTCC
60.32
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TTGTTAGAGCGAGGCGAGAA
59.11
AGAAGCTCTGCTGCCTTTCC
60.32
154
PCR template sequence:
CAACACCATGGAGTCTTTGTTAGAGCGAGGCGAGAAGCTTGATGACCTGGTATCCAAGTCAGAAGTGCTGGGAACACAGTCGAAAGCCTTCTATAAAACTTGTGCAGGAATTCATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTTGCCATGTC
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
CTTCTATAAAACTTGTGCAGGAATTC
siRNA sets
AATTCCTGCACAAGTTTTA,ATTCCTGCACAAGTTTTAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCYKT6_457_ORF_1
0.6683
0.23730134
0.763155869
585
ORF sequence:
ATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTTGCCATGTCTACGTCCGGAGCGACAGTCTGGCAGGTGTGGTCATTGCTGACAGCGAATACCCTTCCAGAGTGGCCTTCACCTTGCTGGAGAAGGTACTAGATGAATTCTCCAAGCAGGTGGATAGAATAGACTGGCCAGTAGGATCCCCGGCTACAATCCAGTACACAGGCCTGGACGATCACCTTAGTAAATACCAGAACCCCCGAGAAGCTGATCCCATGAGTAAAGTGCAGGCCGAACTGGACGAGACCAAAATCATTCTGCACAACACCATGGAGTCTTTGTTAGAGCGAGGCGAGAAGCTTGATGACCTGGTATCCAAGTCAGAAGTGCTGGGAACACAGTCGAAAGCCTTCTATAAAACTTGTGCAGGAATTCATGACCTTTACAAGTCAACTGATTGTGGAACGCTCGGGGAAAGGCAGCAGAGCTTCTGTCAAAGAACAAGAGTATCTTTGCCATGTCTACGTCCGGAGCGACAGTCTGGCAGGTGTGGTCATTGCTGA
Peptide sequence:
MTFTSQLIVERSGKGSRASVKEQEYLCHVYVRSDSLAGVVIADSEYPSRVAFTLLEKVLDEFSKQVDRIDWPVGSPATIQYTGLDDHLSKYQNPREADPMSKVQAELDETKIILHNTMESLLERGEKLDDLVSKSEVLGTQSKAFYKTCAGIHDLYKSTDCGTLGERQQSFCQRTRVSLPCLRPERQSGRCGHC
IRESfinder result
IRESfinder score
0.438583602
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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