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mmu_ciScai_771
Basic information of circular RNA
PanCircBase ID:
mmu_ciScai_771
mm39_Chr. Position ID:
chr2|38992443|38993214|-
Gene name:
Scai
Transcript:
ENSMUST00000038874.12
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
771
Exon/intron sizes in nt:
771
Flanking exon/introns:
chr2:38992411-38993214
Splice length:
771
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTTGTATGACCTCTTTCTGTAGTGGGAAGAGTATGCTCAGGATGGACTTGGTCACTCTTCTGATGCCTGACTTAAAGTGTTTAGTAATGTATGAACATATACAAGTGTTGTTCTAGAGTCCTTCTAACCCTTGCAATTTGAGGAATTGTAGCTGCTTATGATGTGAATAATTTATAATTTATATTTAACATCAATCAGAGACTGTTGGCTAATTATTCTCTCCTTTCTAGATTTTTATTGCTAAACAGTTTTGGGCTTAACACTCAATGCAAAACTGAAAAACAAGAGCAGGATGTGTAGCATTCATGTGCTCAGGCAGCTCAGTGAGACATTGTGGCTATCTGATAGAAGGATGAGGTAAATACCTGTAATCCTGACTTTGGACAGGAGTTAGAGGACCTCTTGGGCCACACACTAGGGTGTTCAAGGACAACCAGGGTATATAAATACACATCAAAGTTGAGTCCAGTGTGAGCTTTATACAGCCTCAAGAGAAGAGAGCTTGCCTTCTTTATCACCAATGGAGACGTTTCTCCCTCCATTTTATATTTCCAGAGAACATTCTCTAACAGATGGGGAGTTGCAAGTAGAAAATGTGTTCACAGCTTTGGGGACAGTTATGCAGTATAGATTAGAGTAAATCTTTGCCATGTGATTTTAAGTTGGAACAAGTGGAAACATGATAACAGTAGTGTGTTAAAAGACATCGGTGTTCCCCCACAGCCTTAAATTGAACTGAATATTAAATACAACTCTTGTTTTTCCTGTCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGACATCGGTGTTCCCCC
59.96
CAGGCATCAGAAGAGTGACCA
59.72
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGACATCGGTGTTCCCCC
59.96
TCAGGCATCAGAAGAGTGACC
59.45
142
PCR template sequence:
AGTGGAAACATGATAACAGTAGTGTGTTAAAAGACATCGGTGTTCCCCCACAGCCTTAAATTGAACTGAATATTAAATACAACTCTTGTTTTTCCTGTCTGTTTGTATGACCTCTTTCTGTAGTGGGAAGAGTATGCTCAGGATGGACTTGGTCACTCTTCTGATGCCTGACTTAAAGTGTTTAGTAATGTATGAACATA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(1), mmu-miR-212-3p(1), mmu-miR-483-5p(1), mmu-miR-362-5p(1), mmu-miR-340-5p(1), mmu-miR-383-5p(1), mmu-miR-342-3p(1), mmu-miR-539-5p(1), mmu-miR-669d-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTTTCCTGTCTGTTTGTATGACCT
siRNA sets
GTCATACAAACAGACAGGA
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
0.81980192
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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