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mmu_circSecisbp2l_809
Basic information of circular RNA
PanCircBase ID:
mmu_circSecisbp2l_809
mm39_Chr. Position ID:
chr2|125594733|125609410|-
Gene name:
Secisbp2l
Transcript:
ENSMUST00000053699.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,11,10,9,8,7
Exon/intron offsets:
0,4380,4618,5352,7458,14561
Genomic length:
14677
Exon/intron sizes in nt:
16,71,42,16,88,11,35,100
Flanking exon/introns:
chr2:125593781-125594733|chr2:125609410-125609728
Splice length:
809
Other database IDs:
CIRCpedia: MMU_CIRCpedia_6540, circAtlas: mmu-Secisbp2l_0008
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_120622
Human Ortholog IDs:
Mature spliced Sequence:
GTGGTGTAAACTGGCCCAAAGTAACTTGCCAGGCAACTCAGAAAAGACCTTGGATGGAAAAGAACCAAGCATTTTCTAGAGGTGGAAGGCAAACTGAACAAAGAAATAATTTACAGGTTGGATTCAGATGCAGAGGGCACAGTACTTCCTCAGAAAGAAGACAGAATTTGCAAAAGAGACAAGACAATAAGCACTTAAACTCTACTCAGTCTCACAGAAGTGACCCAAATTCCGAGTCTTTATATTTTGAGGATGAAGATGGGTTTCAAGAACTAAGTGAGAATGGAAATTCTAAAGATGAGAATATTCAACAGAAACTTTCTTCAAAAGTATTGGATGACTTACCTGAGAACTCACCCATCAATATAGTTCAGACTCCGATTCCCATCACCACCTCAGTTCCTAAGCGAGCCAAGAGTCAGAAGAAAAAAGCGTTAGCTGCAGCCCTTGCTACAGCACAGGAATACTCAGAAATAAGTATGGAGCAAAAAAAGTTGCAGGAAGCTCTATCAAAAGCAGCTGGAAAAAAGACTAAAACCCCTGTGCAGCTGGACCTAGGGGACATGCTAGCTGCTCTGGAGAAGCAGCAGCAGGCAATGAAGGCACGCCAGATCACCAACACCAGGCCGCTGGCACATCCAGTTGTCACCACAGCCACTTTCCACACTAAAGACTCTAACAGAAAGACCTTAGCCAAAAGTCAGCCATGTGTGACATCCTTTAATTCTTTGGATATTACTTCCTCTAAAGCAAAAAAAGGAAAAGAGAAGGAAATTGCAAAGCTAAAACGACCTACGGCACTGAAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAATTGCAAAGCTAAAACGACC
59.85
TGTTCAGTTTGCCTTCCACCT
60.06
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAATTGCAAAGCTAAAACGACC
59.85
TGTTCAGTTTGCCTTCCACC
58.6
140
PCR template sequence:
TGTGACATCCTTTAATTCTTTGGATATTACTTCCTCTAAAGCAAAAAAAGGAAAAGAGAAGGAAATTGCAAAGCTAAAACGACCTACGGCACTGAAAAAGGTGGTGTAAACTGGCCCAAAGTAACTTGCCAGGCAACTCAGAAAAGACCTTGGATGGAAAAGAACCAAGCATTTTCTAGAGGTGGAAGGCAAACTGAACA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-138-5p(1), mmu-miR-377-3p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCACTGAAAAAGGTGGTGTAAACTG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSECISBP2L_809_ORF_1
0.9417
0.091699587
0.914174691
765
ORF sequence:
ATGGAAAAGAACCAAGCATTTTCTAGAGGTGGAAGGCAAACTGAACAAAGAAATAATTTACAGGTTGGATTCAGATGCAGAGGGCACAGTACTTCCTCAGAAAGAAGACAGAATTTGCAAAAGAGACAAGACAATAAGCACTTAAACTCTACTCAGTCTCACAGAAGTGACCCAAATTCCGAGTCTTTATATTTTGAGGATGAAGATGGGTTTCAAGAACTAAGTGAGAATGGAAATTCTAAAGATGAGAATATTCAACAGAAACTTTCTTCAAAAGTATTGGATGACTTACCTGAGAACTCACCCATCAATATAGTTCAGACTCCGATTCCCATCACCACCTCAGTTCCTAAGCGAGCCAAGAGTCAGAAGAAAAAAGCGTTAGCTGCAGCCCTTGCTACAGCACAGGAATACTCAGAAATAAGTATGGAGCAAAAAAAGTTGCAGGAAGCTCTATCAAAAGCAGCTGGAAAAAAGACTAAAACCCCTGTGCAGCTGGACCTAGGGGACATGCTAGCTGCTCTGGAGAAGCAGCAGCAGGCAATGAAGGCACGCCAGATCACCAACACCAGGCCGCTGGCACATCCAGTTGTCACCACAGCCACTTTCCACACTAAAGACTCTAACAGAAAGACCTTAGCCAAAAGTCAGCCATGTGTGACATCCTTTAATTCTTTGGATATTACTTCCTCTAAAGCAAAAAAAGGAAAAGAGAAGGAAATTGCAAAGCTAAAACGACCTACGGCACTGAAAAAGGTGGTGTAA
Peptide sequence:
MEKNQAFSRGGRQTEQRNNLQVGFRCRGHSTSSERRQNLQKRQDNKHLNSTQSHRSDPNSESLYFEDEDGFQELSENGNSKDENIQQKLSSKVLDDLPENSPINIVQTPIPITTSVPKRAKSQKKKALAAALATAQEYSEISMEQKKLQEALSKAAGKKTKTPVQLDLGDMLAALEKQQQAMKARQITNTRPLAHPVVTTATFHTKDSNRKTLAKSQPCVTSFNSLDITSSKAKKGKEKEIAKLKRPTALKKVV
IRESfinder result
IRESfinder score
0.561864108
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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