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mmu_circSupt6_239
Basic information of circular RNA
PanCircBase ID:
mmu_circSupt6_239
mm39_Chr. Position ID:
chr11|78102622|78103022|-
Gene name:
Supt6
Transcript:
ENSMUST00000002121.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
32,31
Exon/intron offsets:
0,286
Genomic length:
400
Exon/intron sizes in nt:
1,25,114
Flanking exon/introns:
chr11:78100362-78102622|chr11:78103022-78103494
Splice length:
239
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAATTTGAAGACTTGGATGAGATTGTTGCCCGCTATGTCCAGCCCATGGCTTCCTTTGCTCGAGACCTTCTGAACCACAAATATTACCAGGACTGTAGTGGTGGGGACCGAAAGAAATTAGAGGAGCTGCTCATCAAAACTAAGAAGGAGAAGCCCACCTTCATCCCTTACTTCATCTGTGCCTGCAAGGAGCTGCCCGGCAAGTTCCTCCTGGGATACCAGCCCCGGGGTAAACCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCCACCTTCATCCCTTACT
59.08
AGGTCTCGAGCAAAGGAAGC
60.04
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCCCACCTTCATCCCTTAC
59.08
AGGTCTCGAGCAAAGGAAGC
60.04
156
PCR template sequence:
CTAAGAAGGAGAAGCCCACCTTCATCCCTTACTTCATCTGTGCCTGCAAGGAGCTGCCCGGCAAGTTCCTCCTGGGATACCAGCCCCGGGGTAAACCCAGGAATTTGAAGACTTGGATGAGATTGTTGCCCGCTATGTCCAGCCCATGGCTTCCTTTGCTCGAGACCTTCTGAACCACAAATATTACCAGGACTGTAGTG
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
GGGGTAAACCCAGGAATTTGAAGACT
siRNA sets
AGTCTTCAAATTCCTGGGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSUPT6_239_ORF_1
1.106
0.255382929
0.443587689
267
ORF sequence:
ATGGCTTCCTTTGCTCGAGACCTTCTGAACCACAAATATTACCAGGACTGTAGTGGTGGGGACCGAAAGAAATTAGAGGAGCTGCTCATCAAAACTAAGAAGGAGAAGCCCACCTTCATCCCTTACTTCATCTGTGCCTGCAAGGAGCTGCCCGGCAAGTTCCTCCTGGGATACCAGCCCCGGGGTAAACCCAGGAATTTGAAGACTTGGATGAGATTGTTGCCCGCTATGTCCAGCCCATGGCTTCCTTTGCTCGAGACCTTCTGA
Peptide sequence:
MASFARDLLNHKYYQDCSGGDRKKLEELLIKTKKEKPTFIPYFICACKELPGKFLLGYQPRGKPRNLKTWMRLLPAMSSPWLPLLETF
IRESfinder result
IRESfinder score
0.538129923
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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