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mmu_circNup160_235
Basic information of circular RNA
PanCircBase ID:
mmu_circNup160_235
mm39_Chr. Position ID:
chr2|90553680|90554079|+
Gene name:
Nup160
Transcript:
ENSMUST00000057481.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
31,32
Exon/intron offsets:
0,275
Genomic length:
399
Exon/intron sizes in nt:
1,11,124
Flanking exon/introns:
chr2:90552434-90553680|chr2:90554079-90555945
Splice length:
235
Other database IDs:
CIRCpedia: MMU_CIRCpedia_213301
circBase: hsa_circ_0022062, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_4650
Human Ortholog IDs:
Mature spliced Sequence:
CCAATCGGCAAATTGAAATTCTGGAATTGGAAGATCTCGAGAAAGAATATTCTTTAGCTCGCATTCGCCTCACGTTGGCTCGGCATGATCCATCAGTGATTGCCATTGCAGGAAGTTCATCAGCAAAGGAGATGAGCGCACTCTTGGTTCAGGCTGGCCTCTTTGATACTGCCATATCACTCTGTCAGACTTTTACTCTTCCATTAACACCAGTCTTTGAAGGGCTTGCTTTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCAGGCTGGCCTCTTTGA
60.25
TGAGGCGAATGCGAGCTAAA
60.11
161
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTTCAGGCTGGCCTCTTTGA
60.25
AGGCGAATGCGAGCTAAAGA
59.82
159
PCR template sequence:
GCGCACTCTTGGTTCAGGCTGGCCTCTTTGATACTGCCATATCACTCTGTCAGACTTTTACTCTTCCATTAACACCAGTCTTTGAAGGGCTTGCTTTCAACCAATCGGCAAATTGAAATTCTGGAATTGGAAGATCTCGAGAAAGAATATTCTTTAGCTCGCATTCGCCTCACGTTGGCTCGGCATGATCCATCAGTGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
GGCTTGCTTTCAACCAATCGGCAAAT
siRNA sets
TTGCCGATTGGTTGAAAGC, TTTGCCGATTGGTTGAAAG, ATTTGCCGATTGGTTGAAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUP160_235_ORF_1
0.8994
-0.17068794
0.031877951
120
ORF sequence:
ATGAGCGCACTCTTGGTTCAGGCTGGCCTCTTTGATACTGCCATATCACTCTGTCAGACTTTTACTCTTCCATTAACACCAGTCTTTGAAGGGCTTGCTTTCAACCAATCGGCAAATTGA
Peptide sequence:
MSALLVQAGLFDTAISLCQTFTLPLTPVFEGLAFNQSAN
IRESfinder result
IRESfinder score
0.851510228
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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