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mmu_circSpop_514
Basic information of circular RNA
PanCircBase ID:
mmu_circSpop_514
mm39_Chr. Position ID:
chr11|95365056|95376173|+
Gene name:
Spop
Transcript:
ENSMUST00000107724.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,6,7,8
Exon/intron offsets:
0,254,7683,11061
Genomic length:
11117
Exon/intron sizes in nt:
152,128,178,56
Flanking exon/introns:
chr11:95362170-95365056|chr11:95376173-95376662
Splice length:
514
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGTTTGCGAGTAAACCCGAAAGGGCTAGATGAAGAAAGCAAAGATTACCTGTCGCTTTACCTGTTGTTGGTCAGCTGTCCAAAGAGTGAAGTTCGGGCAAAGTTCAAGTTCTCCATCCTGAATGCCAAGGGAGAAGAAACCAAAGCTATGGAGAGTCAGCGAGCTTATAGGTTCGTGCAAGGCAAAGACTGGGGATTCAAAAAATTCATCCGCAGAGATTTTCTCTTGGACGAGGCCAATGGGCTTCTCCCTGATGACAAGCTCACCCTCTTCTGTGAGGTGAGTGTAGTACAAGACTCTGTCAATATTTCTGGGCAGAATACTATGAACATGGTAAAGGTTCCTGAATGCCGGTTGGCAGATGAGTTAGGAGGGCTGTGGGAGAACTCTCGATTCACCGACTGCTGCTTGTGTGTGGCTGGTCAAGAATTCCAGGCTCACAAGGCTATCTTAGCAGCTCGGTCTCCAGTCTTCAGTGCCATGTTTGAACATGAAATGGAGGAGAGCAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTTAGCAGCTCGGTCTCCAG
59.9
TGGACAGCTGACCAACAACA
59.75
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTAGCAGCTCGGTCTCCAG
59.9
ACAGCTGACCAACAACAGGT
59.74
143
PCR template sequence:
TGTGGCTGGTCAAGAATTCCAGGCTCACAAGGCTATCTTAGCAGCTCGGTCTCCAGTCTTCAGTGCCATGTTTGAACATGAAATGGAGGAGAGCAAAAAGGTGTTTGCGAGTAAACCCGAAAGGGCTAGATGAAGAAAGCAAAGATTACCTGTCGCTTTACCTGTTGTTGGTCAGCTGTCCAAAGAGTGAAGTTCGGGCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-322-5p(1), mmu-miR-146a-5p(1), mmu-miR-136-5p(1), mmu-miR-433-5p(1), mmu-miR-183-5p(1), mmu-miR-207(1), mmu-miR-146b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGAGAGCAAAAAGGTGTTTGCGAGTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSPOP_514_ORF_1
0.9524
0.242663589
0.797587919
537
ORF sequence:
ATGAAATGGAGGAGAGCAAAAAGGTGTTTGCGAGTAAACCCGAAAGGGCTAGATGAAGAAAGCAAAGATTACCTGTCGCTTTACCTGTTGTTGGTCAGCTGTCCAAAGAGTGAAGTTCGGGCAAAGTTCAAGTTCTCCATCCTGAATGCCAAGGGAGAAGAAACCAAAGCTATGGAGAGTCAGCGAGCTTATAGGTTCGTGCAAGGCAAAGACTGGGGATTCAAAAAATTCATCCGCAGAGATTTTCTCTTGGACGAGGCCAATGGGCTTCTCCCTGATGACAAGCTCACCCTCTTCTGTGAGGTGAGTGTAGTACAAGACTCTGTCAATATTTCTGGGCAGAATACTATGAACATGGTAAAGGTTCCTGAATGCCGGTTGGCAGATGAGTTAGGAGGGCTGTGGGAGAACTCTCGATTCACCGACTGCTGCTTGTGTGTGGCTGGTCAAGAATTCCAGGCTCACAAGGCTATCTTAGCAGCTCGGTCTCCAGTCTTCAGTGCCATGTTTGAACATGAAATGGAGGAGAGCAAAAAG
Peptide sequence:
MKWRRAKRCLRVNPKGLDEESKDYLSLYLLLVSCPKSEVRAKFKFSILNAKGEETKAMESQRAYRFVQGKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQDSVNISGQNTMNMVKVPECRLADELGGLWENSRFTDCCLCVAGQEFQAHKAILAARSPVFSAMFEHEMEESKK
IRESfinder result
IRESfinder score
0.43603725
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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