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mmu_ciSgsm1_183
Basic information of circular RNA
PanCircBase ID:
mmu_ciSgsm1_183
mm39_Chr. Position ID:
chr5|113433309|113433492|-
Gene name:
Sgsm1
Transcript:
ENSMUST00000048112.13
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
183
Exon/intron sizes in nt:
183
Flanking exon/introns:
chr5:113433290-113433492
Splice length:
183
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAGGTCGGGTGCGGATTGCATTTGGTCCTTTGTTCTTGGGGCTCAGGACCTGTCTCTTCTGAAGTGTCTTCTTGCTGGACTCTGGGGCATCCTCACTGCCTGGAGGGAAGTGGAGTGCTCTGAGGGAGACCATTCTGAGGCAGTTGGGGTGGGGGCACTCTTGGGGATGCCAGGTTCCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTCTGAGGCAGTTGGGGTG
59.96
CCCCAGAGTCCAGCAAGAAG
60.04
139
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATTCTGAGGCAGTTGGGGT
59.96
CCCCAGAGTCCAGCAAGAAG
60.04
140
PCR template sequence:
ATCCTCACTGCCTGGAGGGAAGTGGAGTGCTCTGAGGGAGACCATTCTGAGGCAGTTGGGGTGGGGGCACTCTTGGGGATGCCAGGTTCCCGTAAGAGGTCGGGTGCGGATTGCATTTGGTCCTTTGTTCTTGGGGCTCAGGACCTGTCTCTTCTGAAGTGTCTTCTTGCTGGACTCTGGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATGCCAGGTTCCCGTAAGAGGTCGGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CISGSM1_183_ORF_1
0.6896
-0.011851371
0.068462134
195
ORF sequence:
ATGCCAGGTTCCCGTAAGAGGTCGGGTGCGGATTGCATTTGGTCCTTTGTTCTTGGGGCTCAGGACCTGTCTCTTCTGAAGTGTCTTCTTGCTGGACTCTGGGGCATCCTCACTGCCTGGAGGGAAGTGGAGTGCTCTGAGGGAGACCATTCTGAGGCAGTTGGGGTGGGGGCACTCTTGGGGATGCCAGGTTCC
Peptide sequence:
MPGSRKRSGADCIWSFVLGAQDLSLLKCLLAGLWGILTAWREVECSEGDHSEAVGVGALLGMPGS
IRESfinder result
IRESfinder score
0.558287015
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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