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mmu_ciScyl3_1084
Basic information of circular RNA
PanCircBase ID:
mmu_ciScyl3_1084
mm39_Chr. Position ID:
chr1|163766365|163767449|+
Gene name:
Scyl3
Transcript:
ENSMUST00000161908.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
1084
Exon/intron sizes in nt:
1084
Flanking exon/introns:
chr1:163766365-163767449
Splice length:
1084
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTAAAGGCCTGTAGGTCAGGCTCTGGGTGCAGTGGAGTACAACCCTACAAAGACCTAAAAAGTGCAGCCCTTCCCATTTCCTCTGTCCGTTCCTCACTACATTATAAACTATACATGCCTCATGATGCCTCTGACATTGAAAATGCCCGAGGTTAATTTTACTATTCCAGTTAAGGAACAGCTTACAGTTTTGTTTGTATCAAGATGGAGATGTCCCAGTGTGGCCAGAGATGGTGTTTATTTCACGAGACACCATTGCTGCTTTTCTGTACGCTGTAATTATTGGGAAGCAGTAACCTCATCCATCCCGTCTGTCTTCCTAGCCAGTCTCTAGCTGGAATTCTGTGACGTGTGGCAGAGTGCTTGTTACTGTCATGATGAGGAAAGACCATTTAGCAGTTAATTTAAGAACATTGTCAGTCCCTTACAAGTCCTAAAATAAGTGCCAACCTCCTGATTGTTAATATTCTACAGGAAATGCAGGCCCAGCTAGAAACTTAAGGTTTACAATCTCAGGCTCAGCCAAATCTGTTTTATACACATAGACTTTGAAAAAGTTGAAAAAAAGAAAGTAGCACTGGGCATGGCAGATTATAAGAAAAAACATTGCTTTATGACCTTTGTTTTCATTGTGTAAATATATACGTATGTATGTGTATTAGCCTATGTATTATTTATATACTTAATATATATAATATATGTATAGCATATACCTATGTGTGCATATTAGACTATGTATAATATATTTTATTCTGAGCTATGGTCAACATGTTTCAGAAAGCCACAGATATGTATTATATTATGATTTTTTCTTTTTGTTCATATACAGATATTTTTAAGTCTTTGATAAGCCCATCAACTAGTAGTTCCAGGTCTCTCCATTTTGGAGAGAGACCTGCAATTTCATTGGCATACAGTGCACACCTATTTTTCATGCACTTTGAACTAATAATTCCTAAAGCCCGTGGAGTGTGGTTAAAGCCATGAAGTTAGGTTTGAGAATAGTAAATGCAACAAGGGGGATGTTGGAGGCAGCTTCTAAAGCAGGCCCCTCGTTCTAATAGTCTTTAACGCATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGTTGGAGGCAGCTTCT
60.03
ATGGGAAGGGCTGCACTTTT
60.18
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGTTGGAGGCAGCTTCT
60.03
AATGGGAAGGGCTGCACTTT
60.18
142
PCR template sequence:
GCCATGAAGTTAGGTTTGAGAATAGTAAATGCAACAAGGGGGATGTTGGAGGCAGCTTCTAAAGCAGGCCCCTCGTTCTAATAGTCTTTAACGCATTCAGGTAAGTAAAGGCCTGTAGGTCAGGCTCTGGGTGCAGTGGAGTACAACCCTACAAAGACCTAAAAAGTGCAGCCCTTCCCATTTCCTCTGTCCGTTCCTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
16
Interacting miRNAs (#binding sites)
mmu-miR-466d-3p(2), mmu-miR-369-3p(2), mmu-miR-20b-5p(1), mmu-miR-15a-5p(1), mmu-miR-106a-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-135a-5p(1), mmu-miR-322-5p(1), mmu-miR-217-5p(1), mmu-miR-184-3p(1), mmu-miR-185-5p(1), mmu-miR-483-5p(1), mmu-miR-511-3p(1), mmu-miR-340-5p(1), mmu-miR-802-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTAACGCATTCAGGTAAGTAAAGGCC
siRNA sets
CTTTACTTACCTGAATGCG, TTTACTTACCTGAATGCGT, TTACTTACCTGAATGCGTT
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
0.821143987
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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