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mmu_circStag1_287
Basic information of circular RNA
PanCircBase ID:
mmu_circStag1_287
mm39_Chr. Position ID:
chr9|100769432|100770164|+
Gene name:
Stag1
Transcript:
ENSMUST00000129269.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
16,17,18
Exon/intron offsets:
0,450,642
Genomic length:
732
Exon/intron sizes in nt:
104,93,90
Flanking exon/introns:
chr9:100762946-100769432|chr9:100770164-100770298
Splice length:
287
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAATGTCTGACCGTCAAGAGAGTGCTCTTATAGAGCTAATGGTCTGTACAATTCGTCAGGCAGCTGAGGCACATCCTCCAGTGGGAAGGGGTACTGGCAAGAGAGTGCTAACAGCCAAAGAAAGGAAAACTCAAATTGATGATAGGAACAAATTAACTGAACATTTTATCATTACACTTCCTATGTTACTATCAAAGTATTCTGCAGATGCTGAGAAGGTAGCAAACTTGCTGCAAATTCCACAGTATTTTGATCTAGAAATCTACAGCACAGGTCGGATGGAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCAGATGCTGAGAAGGTAGC
60.13
TCAGCTGCCTGACGAATTGT
59.96
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGCAGATGCTGAGAAGGT
58.73
TCAGCTGCCTGACGAATTGT
59.96
154
PCR template sequence:
ACTATCAAAGTATTCTGCAGATGCTGAGAAGGTAGCAAACTTGCTGCAAATTCCACAGTATTTTGATCTAGAAATCTACAGCACAGGTCGGATGGAAAAGCAATGTCTGACCGTCAAGAGAGTGCTCTTATAGAGCTAATGGTCTGTACAATTCGTCAGGCAGCTGAGGCACATCCTCCAGTGGGAAGGGGTACTGGCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-22-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGGATGGAAAAGCAATGTCTGACCG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSTAG1_287_ORF_1
0.9982
0.011193172
0.25737144
318
ORF sequence:
ATGTCTGACCGTCAAGAGAGTGCTCTTATAGAGCTAATGGTCTGTACAATTCGTCAGGCAGCTGAGGCACATCCTCCAGTGGGAAGGGGTACTGGCAAGAGAGTGCTAACAGCCAAAGAAAGGAAAACTCAAATTGATGATAGGAACAAATTAACTGAACATTTTATCATTACACTTCCTATGTTACTATCAAAGTATTCTGCAGATGCTGAGAAGGTAGCAAACTTGCTGCAAATTCCACAGTATTTTGATCTAGAAATCTACAGCACAGGTCGGATGGAAAAGCAATGTCTGACCGTCAAGAGAGTGCTCTTATAG
Peptide sequence:
MSDRQESALIELMVCTIRQAAEAHPPVGRGTGKRVLTAKERKTQIDDRNKLTEHFIITLPMLLSKYSADAEKVANLLQIPQYFDLEIYSTGRMEKQCLTVKRVLL
IRESfinder result
IRESfinder score
0.490785278
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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