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mmu_ciPtprb_840
Basic information of circular RNA
PanCircBase ID:
mmu_ciPtprb_840
mm39_Chr. Position ID:
chr10|116182967|116183807|+
Gene name:
Ptprb
Transcript:
ENSMUST00000218553.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
17
Exon/intron offsets:
0
Genomic length:
840
Exon/intron sizes in nt:
840
Flanking exon/introns:
chr10:116182967-116183831
Splice length:
840
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGAAGCCCAGTCAAGTGACTTCTAAGGATGTATCTTAATTATGACTTTAATGATTCAATCCCTCTCTCTCTCTCTCCCTCCCTCTCCCTCTCTCTCCCTCCCTCTTCCCCTCTCTCTCCCTCCCTCCCTCTCTCCCTCCCTCCCCAACTCCCTCTTTCTCCCTTTCTCTCTCTGTCTCTCTCTGTGTCACACACTCACTAAGTGTGCGTGTGCATGCACATGTCCACATGTAATGCATACACACAGTGCTAAGATGAACCAAGCTTTATGTAAGAATCACTAGGTTCTTAGGGTTTTTTTTGTTTTTTTTTTTTTTTTTTTTGCCATCACTCGCATGCATGAAGCAAGGTCTTTCATGGTGTGTCTCAGTCTCTGTTTTCTTATCTGAAAAATGAGGACAATGACATGCTCCATCACCGCGTTGCTATGGAATAGTCTCTCCTATCTGCTGTTACACCTTGGGTGCACACACATATATCTGTATCCCATCTTGGAGCCAGTCTACAAGATTATCTGAAACTGGACAGAATTGTCTCTGAAACGCAGCCCTACTGCTTCCAAATATGGTGAAATATTTCCCTATATACGTAACCCATTTGGAGCATGTTCATACACAGTAGAACTCTCGTAAAGAAACTCTAGTTATGAGAATTTAAGAAAAGACATATAAAATGTTAGAGTTAGACCGTGCCTTATTTGTGGTAGTTACTATAAAAGAAAGTATCTACATCTATGTTATCATGTTATCTCTTCATACATTAAAGTAGATCTGATGTCACCCAATGTTCTGACTCTGTTATGTCTCAAATCTGATTGTGTGTGGGGTTTTTTGTTTGT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCCAATGTTCTGACTCTGT
59.29
GGAGAGGGAGGGAGAGAGAG
59.52
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACCCAATGTTCTGACTCTGT
59.29
GAGAGAGAGGGAGAGGGAGG
59.52
161
PCR template sequence:
ATCATGTTATCTCTTCATACATTAAAGTAGATCTGATGTCACCCAATGTTCTGACTCTGTTATGTCTCAAATCTGATTGTGTGTGGGGTTTTTTGTTTGTGTAAGAAGCCCAGTCAAGTGACTTCTAAGGATGTATCTTAATTATGACTTTAATGATTCAATCCCTCTCTCTCTCTCTCCCTCCCTCTCCCTCTCTCTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-185-5p(5), mmu-miR-466a-5p(3), mmu-miR-1187(2), mmu-miR-466p-5p(2), mmu-miR-194-5p(1), mmu-miR-541-5p(1), mmu-miR-297a-5p(1), mmu-miR-224-5p(1), mmu-miR-574-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTTTTGTTTGTGTAAGAAGCCCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.913262391
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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