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mmu_circSrsf9_334
Basic information of circular RNA
PanCircBase ID:
mmu_circSrsf9_334
mm39_Chr. Position ID:
chr5|115468556|115470348|+
Gene name:
Srsf9
Transcript:
ENSMUST00000031513.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,1619
Genomic length:
1792
Exon/intron sizes in nt:
1,61,173
Flanking exon/introns:
chr5:115465558-115468556|chr5:115470348-115470634
Splice length:
334
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGATGCTGAGGATGCGATCTATGGAAGAAACGGTTACGATTATGGCCAGTGTCGACTCCGTGTGGAGTTCCCCAGGACTTACGGAGGTCGGGGTGGGTGGCCCCGTGGTGCAAGGAACGGGCCTCCTACAAGACGGTCAGATTTCCGAGTTCTTGTTTCAGGACTTCCTCCATCAGGCAGCTGGCAGGACCTGAAAGATCACATGCGAGAAGCTGGGGATGTCTGTTATGCAGACGTACAGAAGGACGGAATGGGGATGGTTGAATATTTGAGAAAAGAGGACATGGAATATGCTCTGCGTAAACTGGATGACACCAAATTCCGCTCTCACGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGGACGGAATGGGGATGG
60.18
TCCGTAAGTCCTGGGGAACT
59.88
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACGGAATGGGGATGGTTGA
59.75
TCCGTAAGTCCTGGGGAACT
59.88
175
PCR template sequence:
CGTACAGAAGGACGGAATGGGGATGGTTGAATATTTGAGAAAAGAGGACATGGAATATGCTCTGCGTAAACTGGATGACACCAAATTCCGCTCTCACGAGAGATGCTGAGGATGCGATCTATGGAAGAAACGGTTACGATTATGGCCAGTGTCGACTCCGTGTGGAGTTCCCCAGGACTTACGGAGGTCGGGGTGGGTGG
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-22-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCGCTCTCACGAGAGATGCTGAGGAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSRSF9_334_ORF_1
0.8162
0.244316371
0.496440781
378
ORF sequence:
ATGCTCTGCGTAAACTGGATGACACCAAATTCCGCTCTCACGAGAGATGCTGAGGATGCGATCTATGGAAGAAACGGTTACGATTATGGCCAGTGTCGACTCCGTGTGGAGTTCCCCAGGACTTACGGAGGTCGGGGTGGGTGGCCCCGTGGTGCAAGGAACGGGCCTCCTACAAGACGGTCAGATTTCCGAGTTCTTGTTTCAGGACTTCCTCCATCAGGCAGCTGGCAGGACCTGAAAGATCACATGCGAGAAGCTGGGGATGTCTGTTATGCAGACGTACAGAAGGACGGAATGGGGATGGTTGAATATTTGAGAAAAGAGGACATGGAATATGCTCTGCGTAAACTGGATGACACCAAATTCCGCTCTCACGAG
Peptide sequence:
MLCVNWMTPNSALTRDAEDAIYGRNGYDYGQCRLRVEFPRTYGGRGGWPRGARNGPPTRRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQKDGMGMVEYLRKEDMEYALRKLDDTKFRSHE
IRESfinder result
IRESfinder score
0.225197407
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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