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mmu_circCasc3_191
Basic information of circular RNA
PanCircBase ID:
mmu_circCasc3_191
mm39_Chr. Position ID:
chr11|98701723|98712409|+
Gene name:
Casc3
Transcript:
ENSMUST00000017384.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
4,5
Exon/intron offsets:
0,10533
Genomic length:
10686
Exon/intron sizes in nt:
38,153
Flanking exon/introns:
chr11:98701312-98701723|chr11:98712409-98712485
Splice length:
191
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CTGTTCTTTCCGATTATGAAAGTGCAGAAGATTCAGAAGGTGAAGAAGACTACAGTGAAGAGGAGAATTCCAAGGTGGAGCTGAAATCAGAAGCTAACGATGCTGCTGATTCCTCTGCGAAAGAAAAGGGAGAGGAAAAGCCTGAGTCTAAAGGCACGGTGACTGGGGAGAGGCAGAGCGGCGATGGGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTAAAGGCACGGTGACTGG
59.68
TGATTTCAGCTCCACCTTGGA
59.3
134
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTAAAGGCACGGTGACTGG
59.68
GCTTCTGATTTCAGCTCCACC
59.26
139
PCR template sequence:
ACGATGCTGCTGATTCCTCTGCGAAAGAAAAGGGAGAGGAAAAGCCTGAGTCTAAAGGCACGGTGACTGGGGAGAGGCAGAGCGGCGATGGGCAGCTGTTCTTTCCGATTATGAAAGTGCAGAAGATTCAGAAGGTGAAGAAGACTACAGTGAAGAGGAGAATTCCAAGGTGGAGCTGAAATCAGAAGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-298-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CGGCGATGGGCAGCTGTTCTTTCCGA
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
0.234055885
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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