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mmu_circSgcd_120
Basic information of circular RNA
PanCircBase ID:
mmu_circSgcd_120
mm39_Chr. Position ID:
chr11|47016361|47016481|-
Gene name:
Sgcd
Transcript:
ENSMUST00000109220.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
120
Exon/intron sizes in nt:
120
Flanking exon/introns:
chr11:46973678-47016361|chr11:47016481-47023424
Splice length:
120
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCCGAAGGCTGTGGAAGCATATGGCAAAAGGTTTGAAGTAAAAACTGTTTCTGGAAAATTGCTCTTTTCTGCGGATGACAGTGAAGTGGTCGTGGGAGCTGAGAGATTGAGAGTCTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCTTTTCTGCGGATGACA
60.27
ATTTTCCAGAAACAGTTTTTACTTCA
56.47
120
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCTTTTCTGCGGATGAC
58.56
ATTTTCCAGAAACAGTTTTTACTTCA
56.47
120
PCR template sequence:
TGCTCTTTTCTGCGGATGACAGTGAAGTGGTCGTGGGAGCTGAGAGATTGAGAGTCTTAGGTCCGAAGGCTGTGGAAGCATATGGCAAAAGGTTTGAAGTAAAAACTGTTTCTGGAAAAT
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-499-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGAGAGTCTTAGGTCCGAAGGCTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.286988781
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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