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mmu_circCspp1_515
Basic information of circular RNA
PanCircBase ID:
mmu_circCspp1_515
mm39_Chr. Position ID:
chr1|10178593|10183932|+
Gene name:
Cspp1
Transcript:
ENSMUST00000071087.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
18,19,20,21
Exon/intron offsets:
0,4024,4507,5234
Genomic length:
5339
Exon/intron sizes in nt:
1,13,15,01,47,105
Flanking exon/introns:
chr1:10174589-10178593|chr1:10183932-10186242
Splice length:
515
Other database IDs:
CIRCpedia: HSA_CIRCpedia_354069
Human Ortholog IDs:
Mature spliced Sequence:
GTCCTTTGCAAACACAAAGCTCTCCTTTTGCCCGGGGAAACACATTTGGTGAGCCACTCAGCGAGCTTCAGATTAAACAGCAAGAATTATACAAGAATTTTCTTCGTTTTCAGATTGAGGAAAAGAGACAAAGAGAAGAAGCCGAGCGCGAGAAGCTGAGAGTTGCTGAAGAGAAGGAAGAAAAGCGGCTTGCGGAGCAGAGGGCAAGGATTCAGCAAGAGTATGAGGAGGAGCAGGAGCGGAGGAGGGAGAAGGAGGAGGAGCAAAGGTTGAAAAATGAAGAACTTATTCGGTTAGCTGAAGAGAGGCGAAAGGAAGCGGAAAGAAAGAAGAAAGAGGAGGAAGAAAAACATAACTTGCAACTTCAGCATTACTATGAGAGAGAAAATATTATCGGAGATGAAACAAAGCACTTGAGACAGCCTTCTCCTGTAGTTCCTGCTCTTCAGAACAAAATTGCAAGCAAACTCCAAAGACCTCCTTCAGTCGACACCATCATAAGTTCCTTCATTCAC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTTCTCCTGTAGTTCCTGC
60.41
ATCTGAAGCTCGCTGAGTGG
59.82
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTTCTCCTGTAGTTCCTGC
60.41
CACCAAATGTGTTTCCCCGG
59.68
145
PCR template sequence:
GAGACAGCCTTCTCCTGTAGTTCCTGCTCTTCAGAACAAAATTGCAAGCAAACTCCAAAGACCTCCTTCAGTCGACACCATCATAAGTTCCTTCATTCACGTCCTTTGCAAACACAAAGCTCTCCTTTTGCCCGGGGAAACACATTTGGTGAGCCACTCAGCGAGCTTCAGATTAAACAGCAAGAATTATACAAGAATTT
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-155-5p(1), mmu-miR-127-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCTTCATTCACGTCCTTTGCAAAC
siRNA sets
TTTGCAAAGGACGTGAATG, TTGCAAAGGACGTGAATGA, AAAGGACGTGAATGAAGGA
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
0.463424512
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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