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mmu_circCspp1_469
Basic information of circular RNA
PanCircBase ID:
mmu_circCspp1_469
mm39_Chr. Position ID:
chr1|10182617|10186309|+
Gene name:
Cspp1
Transcript:
ENSMUST00000071087.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
19,20,21,22
Exon/intron offsets:
0,483,1210,3625
Genomic length:
3692
Exon/intron sizes in nt:
150,147,105,67
Flanking exon/introns:
chr1:10178706-10182617|chr1:10186309-10186838
Splice length:
469
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
ATTGAGGAAAAGAGACAAAGAGAAGAAGCCGAGCGCGAGAAGCTGAGAGTTGCTGAAGAGAAGGAAGAAAAGCGGCTTGCGGAGCAGAGGGCAAGGATTCAGCAAGAGTATGAGGAGGAGCAGGAGCGGAGGAGGGAGAAGGAGGAGGAGCAAAGGTTGAAAAATGAAGAACTTATTCGGTTAGCTGAAGAGAGGCGAAAGGAAGCGGAAAGAAAGAAGAAAGAGGAGGAAGAAAAACATAACTTGCAACTTCAGCATTACTATGAGAGAGAAAATATTATCGGAGATGAAACAAAGCACTTGAGACAGCCTTCTCCTGTAGTTCCTGCTCTTCAGAACAAAATTGCAAGCAAACTCCAAAGACCTCCTTCAGTCGACACCATCATAAGTTCCTTCATTCACGAAAGCTCCATGTCCCGGGCACAGTCTCCTCCAGTGCCTGCAAGGAAGAACCAACTCCGTGCAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCACGAAAGCTCCATGTCCC
60.04
GCAAGCCGCTTTTCTTCCTT
59.68
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCACGAAAGCTCCATGTCCC
60.04
GAATCCTTGCCCTCTGCTCC
60.47
171
PCR template sequence:
TCAGTCGACACCATCATAAGTTCCTTCATTCACGAAAGCTCCATGTCCCGGGCACAGTCTCCTCCAGTGCCTGCAAGGAAGAACCAACTCCGTGCAGAAGATTGAGGAAAAGAGACAAAGAGAAGAAGCCGAGCGCGAGAAGCTGAGAGTTGCTGAAGAGAAGGAAGAAAAGCGGCTTGCGGAGCAGAGGGCAAGGATTC
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-155-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CTCCGTGCAGAAGATTGAGGAAAAGA
siRNA sets
TTTTCCTCAATCTTCTGCA, TTTCCTCAATCTTCTGCAC, TTCCTCAATCTTCTGCACG
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
0.326845042
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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