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mmu_circScg3_471
Basic information of circular RNA
PanCircBase ID:
mmu_circScg3_471
mm39_Chr. Position ID:
chr9|75576496|75584093|-
Gene name:
Scg3
Transcript:
ENSMUST00000034699.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,6,5
Exon/intron offsets:
0,6130,7454
Genomic length:
7597
Exon/intron sizes in nt:
17,81,50,143
Flanking exon/introns:
chr9:75573052-75576496|chr9:75584093-75589245
Splice length:
471
Other database IDs:
circAtlas: hsa-SCG3_0011
Human Ortholog IDs:
Mature spliced Sequence:
ATGACCCAGACGGCCTTCATCAACTGGATGGAACTCCTTTAACTGCTGAAGACATCGTCCATAAGATTGCCACCAGGATTTATGAGGAGAACGACAGAGGAGTGTTTGACAAAATTGTTTCTAAACTGCTGAATCTTGGCCTGATCACTGAAAGCCAGGCACATACTCTGGAAGATGAAGTAGCAGAAGCTTTACAAAAACTGATTTCAAAAGAGGCCAACAATTATGAGGAGACCCTGGATAAACCCACAAGCAGGACCGAGAATCAGGATGGGAAAATACCAGAGAAAGTGACTCCGGTGGCAGCAGTCCAAGATGGCTTCACTAACCGTGAAAACGATGAGACGGTGTCTAACACCTTGACCTTGTCCAATGGCTTGGAAAGGAGAACTAACCCCCACAGGGAAGACGACTTTGAGGAACTCCAGTATTTCCCCAACTTCTATGCACTACTGACAAGCATCGACTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACTAACCCCCACAGG
59.38
TGGACGATGTCTTCAGCAGT
59.03
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAACTAACCCCCACAGG
59.38
TGGACGATGTCTTCAGCAGTT
59.66
148
PCR template sequence:
AATGGCTTGGAAAGGAGAACTAACCCCCACAGGGAAGACGACTTTGAGGAACTCCAGTATTTCCCCAACTTCTATGCACTACTGACAAGCATCGACTCAGATGACCCAGACGGCCTTCATCAACTGGATGGAACTCCTTTAACTGCTGAAGACATCGTCCATAAGATTGCCACCAGGATTTATGAGGAGAACGACAGAGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-199b-3p(1), mmu-miR-199a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGCATCGACTCAGATGACCCAGACGG
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
0.545232015
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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