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mmu_circCds1_195
Basic information of circular RNA
PanCircBase ID:
mmu_circCds1_195
mm39_Chr. Position ID:
chr5|101939340|101944967|+
Gene name:
Cds1
Transcript:
ENSMUST00000031273.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,5529
Genomic length:
5627
Exon/intron sizes in nt:
97,98
Flanking exon/introns:
chr5:101929368-101939340|chr5:101944967-101946242
Splice length:
195
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATGGAAGAACTGGTGGATTCGCGGGATCCTCACCCTCACCATGATCTCCCTCTTCTTCCTGATTATCTATATGGGGTCCTTCATGCTGATGCTTCTGGTTCTGGGCATCCAAGTGAAGTGCTTCCATGAGATCATCACCATCGGGTACCGGGTCTACCACTCCTACGACCTCCCATGGTTTAGGACACTAAGTTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCATCCAAGTGAAGTGCT
60.61
AGGGAGATCATGGTGAGGGT
59.66
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGCATCCAAGTGAAGTGCT
60.61
CATGGTGAGGGTGAGGATCC
59.53
136
PCR template sequence:
TTCTGGGCATCCAAGTGAAGTGCTTCCATGAGATCATCACCATCGGGTACCGGGTCTACCACTCCTACGACCTCCCATGGTTTAGGACACTAAGTTGATGGAAGAACTGGTGGATTCGCGGGATCCTCACCCTCACCATGATCTCCCTCTTCTTCCTGATTATCTATATGGGGTCCTTCATGCTGATGCTTCTG
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
GGACACTAAGTTGATGGAAGAACTGG
siRNA sets
TTCTTCCATCAACTTAGTG, GTTCTTCCATCAACTTAGT, CTTCCATCAACTTAGTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCDS1_195_ORF_1
1.1813
0.267644059
0.302503842
156
ORF sequence:
ATGATCTCCCTCTTCTTCCTGATTATCTATATGGGGTCCTTCATGCTGATGCTTCTGGTTCTGGGCATCCAAGTGAAGTGCTTCCATGAGATCATCACCATCGGGTACCGGGTCTACCACTCCTACGACCTCCCATGGTTTAGGACACTAAGTTGA
Peptide sequence:
MISLFFLIIYMGSFMLMLLVLGIQVKCFHEIITIGYRVYHSYDLPWFRTLS
IRESfinder result
IRESfinder score
0.817099393
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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