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mmu_circSpidr_289
Basic information of circular RNA
PanCircBase ID:
mmu_circSpidr_289
mm39_Chr. Position ID:
chr16|15730382|15733251|-
Gene name:
Spidr
Transcript:
ENSMUST00000040248.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
14,13,12
Exon/intron offsets:
0,150,2781
Genomic length:
2869
Exon/intron sizes in nt:
60,141,88
Flanking exon/introns:
chr16:15722125-15730382|chr16:15733251-15754416
Splice length:
289
Other database IDs:
CIRCpedia: MMU_CIRCpedia_36709, circAtlas: mmu-Spidr_0004
circBase: hsa_circ_0001799, circAtlas: hsa-SPIDR_0005, CIRCpedia: HSA_CIRCpedia_61208
Human Ortholog IDs:
Mature spliced Sequence:
GACACCAGGGCTCTTCAGTTTAATTGACAGTTTGTGGCCCCCAGTGATATCTCTGACTGAGCCTTCCTGTGGCCAGCCCAGTGGAGAGACAAAGACTTATCTGCCTCCTCCTATCTTCTGTTATATCTTCTCTGCACATCCAACACTGGGACAAATTGATGCAATTGAAGACCACATTTCCAAGCTTTACCAGCCTCCAGTTGTCCGCTGCTTAAAAGAAATCCTCCAGACTAATGAGTGCAGTACACGTTGCAGCTTCTATGCCAGAGTGATTTATCAAAAACCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGTTGTCCGCTGCTTA
60.04
CCACAGGAAGGCTCAGTCAG
60.04
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCAGTTGTCCGCTGCTTA
60.04
TATCACTGGGGGCCACAAAC
59.96
144
PCR template sequence:
CCAGCCTCCAGTTGTCCGCTGCTTAAAAGAAATCCTCCAGACTAATGAGTGCAGTACACGTTGCAGCTTCTATGCCAGAGTGATTTATCAAAAACCACAGGACACCAGGGCTCTTCAGTTTAATTGACAGTTTGTGGCCCCCAGTGATATCTCTGACTGAGCCTTCCTGTGGCCAGCCCAGTGGAGAGACAAAGACTTAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-24-3p(1), mmu-miR-503-5p(1), mmu-miR-410-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCAAAAACCACAGGACACCAGGGCTC
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
0.86792686
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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