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mmu_ciLsg1_118
Basic information of circular RNA
PanCircBase ID:
mmu_ciLsg1_118
mm39_Chr. Position ID:
chr16|30389864|30389982|-
Gene name:
Lsg1
Transcript:
ENSMUST00000117363.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
118
Exon/intron sizes in nt:
118
Flanking exon/introns:
chr16:30388248-30389982
Splice length:
118
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGATGAAGGACACTGAAGCCAGCACATGAGAGAGCCTGCAGCAGTCCCTGTCCTTCCACAGCTACAGGTGGACCCACACAGTCAGGCAGGCTTCTGCACCACAGGGAAGACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCACAGGGAAGACACAGG
60.25
CAGGCTCTCTCATGTGCTGG
60.46
60
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACCACAGGGAAGACACAGG
60.25
CTGCTGCAGGCTCTCTCATG
60.81
66
PCR template sequence:
CACAGCTACAGGTGGACCCACACAGTCAGGCAGGCTTCTGCACCACAGGGAAGACACAGGTAAGATGAAGGACACTGAAGCCAGCACATGAGAGAGCCTGCAGCAGTCCCTGTCCTTC
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
AGGGAAGACACAGGTAAGATGAAGGA
siRNA sets
TCTTACCTGTGTCTTCCCT, ATCTTACCTGTGTCTTCCC, CATCTTACCTGTGTCTTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CILSG1_118_ORF_1
0.8693
0.013170745
0.053972901
99
ORF sequence:
ATGAGAGAGCCTGCAGCAGTCCCTGTCCTTCCACAGCTACAGGTGGACCCACACAGTCAGGCAGGCTTCTGCACCACAGGGAAGACACAGGTAAGATGA
Peptide sequence:
MREPAAVPVLPQLQVDPHSQAGFCTTGKTQVR
IRESfinder result
IRESfinder score
0.399770019
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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