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mmu_ciSupt20_634
Basic information of circular RNA
PanCircBase ID:
mmu_ciSupt20_634
mm39_Chr. Position ID:
chr3|54615817|54616451|+
Gene name:
Supt20
Transcript:
ENSMUST00000197502.5
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
634
Exon/intron sizes in nt:
634
Flanking exon/introns:
chr3:54615817-54616451
Splice length:
634
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAACCACCAGCACTTGGGTAACACAGGCTCTTAAGTTTGACATCGTTGCTAGCCAGAGTGCCCTTTCCCTTGGCATGTGAGGGCTGGAATTCTAAGTTCAAAAATGGGATTTTTCATGGCCTTGTATTGTGGATTTATGTTATAGACCTTTTTAAAAAATATTTTCTGCATTATTATAAAGTAATATTTTCCTCAGTCTTTTAAAGAAGGAACTTTTATAAGTTTATGGTCTGTTCACCAAAATGGTTGTGAGGCTGTAAGAAGACTAGATAGAAACAGAAGGGTAGTTGCTTCACTGCTTCTCAACACTAATTGGAATCAGTTAACAAGGAAACAATGTGTAACTTAACGAGTTTTGAGAAAATACAATCACAATTTTTAGAGATTAGCTTATAATGACTGCCTCTCTAGTTCTGGATTCAAACTAGTGTGGCTCCATGGTCATGAGTATTTTGTCTTGTTCTTTTTCTTTCACCTGTGCTTAAAGCTTGCTGGTGTGAAAGTTGTATTTATAGATGGAGTGTGTGAGTGTGTGTGTGGTAAGTGGGTATCTGTGATGGAGTCTGTGATCTGTGCCTGCTCCTTTTCCCCGTGTGGTAGAGTTGCTGCTTCATTGCTTCCTGTCTGTTGTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTCTGTGATCTGTGCCTGCT
60.04
GGAAAGGGCACTCTGGCTAG
60.11
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCTGTGATCTGTGCCTGC
60.04
GGAAAGGGCACTCTGGCTAG
60.11
142
PCR template sequence:
TGTGTGGTAAGTGGGTATCTGTGATGGAGTCTGTGATCTGTGCCTGCTCCTTTTCCCCGTGTGGTAGAGTTGCTGCTTCATTGCTTCCTGTCTGTTGTAGGTAACCACCAGCACTTGGGTAACACAGGCTCTTAAGTTTGACATCGTTGCTAGCCAGAGTGCCCTTTCCCTTGGCATGTGAGGGCTGGAATTCTAAGTTC
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-381-3p(1), mmu-miR-214-3p(1), mmu-miR-466d-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTCTGTTGTAGGTAACCACCAGCA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CISUPT20_634_ORF_1
0.7399
-0.363434169
0.008177175
81
ORF sequence:
ATGGAGTCTGTGATCTGTGCCTGCTCCTTTTCCCCGTGTGGTAGAGTTGCTGCTTCATTGCTTCCTGTCTGTTGTAGGTAA
Peptide sequence:
MESVICACSFSPCGRVAASLLPVCCR
IRESfinder result
IRESfinder score
0.907679657
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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