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mmu_circRpa1_198
Basic information of circular RNA
PanCircBase ID:
mmu_circRpa1_198
mm39_Chr. Position ID:
chr11|75219498|75231224|-
Gene name:
Rpa1
Transcript:
ENSMUST00000092907.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,11617
Genomic length:
11726
Exon/intron sizes in nt:
89,109
Flanking exon/introns:
chr11:75209357-75219498|chr11:75231224-75231853
Splice length:
198
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CGTTCATGCTGGCCACGCAGCTGAACACCCTGGTCGAGGGAGGGCAGCTGGCCAGCAACTGTGTCTGCCAGGTCCACAAGTTCATCGTCAACACCCTGAAAGACGGCAGGAAAGTAGTTGTTTTGATGGACTTGGAAGTTATGAAATCTGCTGAAGACGTTGGATTAAAGATTGGGAATCCAGTGCCCTATAATGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGACGGCAGGAAAGTAGTTGT
59.31
AACTTGTGGACCTGGCAGAC
60.18
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GATTGGGAATCCAGTGCCCT
59.74
TCAGGGTGTTGACGATGAACT
59.31
128
PCR template sequence:
AAGACGGCAGGAAAGTAGTTGTTTTGATGGACTTGGAAGTTATGAAATCTGCTGAAGACGTTGGATTAAAGATTGGGAATCCAGTGCCCTATAATGAAGCGTTCATGCTGGCCACGCAGCTGAACACCCTGGTCGAGGGAGGGCAGCTGGCCAGCAACTGTGTCTGCCAGGTCCACAAGTTCATCGTCAACACCCTGA
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
CCCTATAATGAAGCGTTCATGCTGGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRPA1_198_ORF_1
1.274
0.365833047
0.806421288
390
ORF sequence:
ATGCTGGCCACGCAGCTGAACACCCTGGTCGAGGGAGGGCAGCTGGCCAGCAACTGTGTCTGCCAGGTCCACAAGTTCATCGTCAACACCCTGAAAGACGGCAGGAAAGTAGTTGTTTTGATGGACTTGGAAGTTATGAAATCTGCTGAAGACGTTGGATTAAAGATTGGGAATCCAGTGCCCTATAATGAAGCGTTCATGCTGGCCACGCAGCTGAACACCCTGGTCGAGGGAGGGCAGCTGGCCAGCAACTGTGTCTGCCAGGTCCACAAGTTCATCGTCAACACCCTGAAAGACGGCAGGAAAGTAGTTGTTTTGATGGACTTGGAAGTTATGAAATCTGCTGAAGACGTTGGATTAAAGATTGGGAATCCAGTGCCCTATAATGAA
Peptide sequence:
MLATQLNTLVEGGQLASNCVCQVHKFIVNTLKDGRKVVVLMDLEVMKSAEDVGLKIGNPVPYNEAFMLATQLNTLVEGGQLASNCVCQVHKFIVNTLKDGRKVVVLMDLEVMKSAEDVGLKIGNPVPYNE
IRESfinder result
IRESfinder score
0.400105337
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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