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mmu_ciImpact_439
Basic information of circular RNA
PanCircBase ID:
mmu_ciImpact_439
mm39_Chr. Position ID:
chr18|13109088|13109527|+
Gene name:
Impact
Transcript:
ENSMUST00000234763.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
439
Exon/intron sizes in nt:
439
Flanking exon/introns:
chr18:13109088-13109525
Splice length:
439
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCTTTGTCTTCTCCTTTATATATATTGGTGTGTGTGTGTATTTACTTTATGTATGTGAGTACACTGTTGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGCTGCTGAGAATTACACTCAGGATATTTGGAGGAGCAGTTAGTGCTCTTAACTGCTGATCCATTTCTCTAGCGCCTTCGTTTATATTTTTTTAAAAATATTTTGCTGTCAAAGATAATCTTCTATTTAGTCCTTGTGTTTATAGAAAATACTTTGTTTAAAATGAATATAGAAATTAAAAGCATCTTTTACATTGGTGTAGAGCATTTTACAGAATGATGAAAAACCACACTAATGAATATTTGAAATATATACCTAATTCTTGACTAATGTTCTTTACTGTGTTTTATTCAATCTTAGCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAATGATGAAAAACCACACT
56.89
AGACAGCAACAGTGTACTCACA
59.57
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGAATGATGAAAAACCACACT
56.89
GTCTGAAGACAGCAACAGTGT
58.44
177
PCR template sequence:
AGCATTTTACAGAATGATGAAAAACCACACTAATGAATATTTGAAATATATACCTAATTCTTGACTAATGTTCTTTACTGTGTTTTATTCAATCTTAGCGGTAAGCTTTGTCTTCTCCTTTATATATATTGGTGTGTGTGTGTATTTACTTTATGTATGTGAGTACACTGTTGCTGTCTTCAGACACACCAGAAGAGGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-340-5p(1), mmu-miR-466d-3p(1), mmu-miR-335-3p(1), mmu-miR-466b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAATCTTAGCGGTAAGCTTTGTCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIIMPACT_439_ORF_1
0.8518
-0.257219723
0.039385822
213
ORF sequence:
ATGTTCTTTACTGTGTTTTATTCAATCTTAGCGGTAAGCTTTGTCTTCTCCTTTATATATATTGGTGTGTGTGTGTATTTACTTTATGTATGTGAGTACACTGTTGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGCTGCTGAGAATTACACTCAGGATATTTGGAGGAGCAGTTAG
Peptide sequence:
MFFTVFYSILAVSFVFSFIYIGVCVYLLYVCEYTVAVFRHTRRGHQIPLQMVVSHHVAAENYTQDIWRSS
IRESfinder result
IRESfinder score
0.933760538
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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