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mmu_circNup160_475
Basic information of circular RNA
PanCircBase ID:
mmu_circNup160_475
mm39_Chr. Position ID:
chr2|90555945|90563554|+
Gene name:
Nup160
Transcript:
ENSMUST00000057481.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
33,34,35,36
Exon/intron offsets:
0,4077,7179,7504
Genomic length:
7609
Exon/intron sizes in nt:
1,02,14,21,26,105
Flanking exon/introns:
chr2:90554079-90555945|chr2:90563554-90565758
Splice length:
475
Other database IDs:
circAtlas: mmu-Nup160_0019
Human Ortholog IDs:
Mature spliced Sequence:
GTGCATTAAGTTGCAGTTTGGAGGAGAAGCAGCACAAGGAGAAGCGTGGTCCTGGCTAGCAACCAATCAGCTGTCGTCTGTCATCACCACCAAGGAGTCCAGTGCTACAGATGAAGCATGGAGGCTATTGTCAACTTACTTGGAAAGATACAAAGTCCAGAATAACTTGTATCATCATTGTGTGATTAACAAGTTGTTGTCTCATGGAGTTCCTCTGCCTAATTGGCTTATAAACAGTTACAAGAAGGTTGATGCTGCCGAGTTGCTTCGTCTTTACCTGAACTATGACCTTTTAGAAGAAGCTGTGGATTTGGTCTCTGAATATGTAGATGCTGTATTAGGAAAAGGACATCAGTACTTTGGAATTGAGTTTCCACTGTCAGCAACAGCCCCGATGGTATGGCTCCCATACTCTTCTATTGACCAGCTTCTCCAGGCTCTGGGAGAGAACAGTGCCAACAGTCACAACATTATA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGACCAGCTTCTCCAGGC
60.03
TGGTGATGACAGACGACAGC
60.04
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTGACCAGCTTCTCCAGGC
60.03
GGTGATGACAGACGACAGCT
59.76
145
PCR template sequence:
ACTGTCAGCAACAGCCCCGATGGTATGGCTCCCATACTCTTCTATTGACCAGCTTCTCCAGGCTCTGGGAGAGAACAGTGCCAACAGTCACAACATTATAGTGCATTAAGTTGCAGTTTGGAGGAGAAGCAGCACAAGGAGAAGCGTGGTCCTGGCTAGCAACCAATCAGCTGTCGTCTGTCATCACCACCAAGGAGTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-26b-5p(1), mmu-miR-207(1), mmu-miR-544-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCACAACATTATAGTGCATTAAGTTG
siRNA sets
AATGCACTATAATGTTGTG, TTAATGCACTATAATGTTG, TAATGCACTATAATGTTGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNUP160_475_ORF_1
0.9386
-0.038306638
0.046220691
90
ORF sequence:
ATGGTATGGCTCCCATACTCTTCTATTGACCAGCTTCTCCAGGCTCTGGGAGAGAACAGTGCCAACAGTCACAACATTATAGTGCATTAA
Peptide sequence:
MVWLPYSSIDQLLQALGENSANSHNIIVH
IRESfinder result
IRESfinder score
0.667544242
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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