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mmu_circPlin3_498
Basic information of circular RNA
PanCircBase ID:
mmu_circPlin3_498
mm39_Chr. Position ID:
chr17|56588406|56591430|-
Gene name:
Plin3
Transcript:
ENSMUST00000019726.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,5
Exon/intron offsets:
0,2726
Genomic length:
3024
Exon/intron sizes in nt:
2,00,298
Flanking exon/introns:
chr17:56587867-56588406|chr17:56591430-56593212
Splice length:
498
Other database IDs:
circAtlas: mmu-Plin3_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTTTTGGCGGATACTAAGGAACTGGTGTCATCTACAGTGTCTGGGGCTCAAGAAATGGTATCTAGCTCAGTGTCTAGTGCGAAGGAAACAGTGGCCACCCGGGTCACAGGAGCGGTGGATGTGACCCTCGGGGCTGTGCAGAACAGCGTGGACAAGACCAAGTCAGCAATGACCAGCGGTGTCCAATCAGTCATGGGCTCACGTGTGGGACAGATGGTGATTAGCGGAGTGGACAGAGTGCTTGTGAAATCAGAGGCCTGGGCAGACAATCGCCTGCCCCTGACAGAGGCGGAGCTAGCTCTGATTGCCACACCCCCGGAGGACTCGGACATGGCCTCACTGCAGCAGCAGCGACAGGAGCAGAACTACTTTGTCCGGTTGGGCTCTCTCTCTGAGAGGCTGCGCAATCACGCCTATGAACACTCCCTCGGCAAGCTGCAGAATGCCAGGCAGAAGGCACAGGAGACGCTGCAGCAGCTAACAAGTGTGCTCGGCCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTATGAACACTCCCTCGGC
59.89
TTCTTGAGCCCCAGACACTG
59.6
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCCTATGAACACTCCCTCGG
59.89
TTCTTGAGCCCCAGACACTG
59.6
141
PCR template sequence:
GCTGCGCAATCACGCCTATGAACACTCCCTCGGCAAGCTGCAGAATGCCAGGCAGAAGGCACAGGAGACGCTGCAGCAGCTAACAAGTGTGCTCGGCCTGGTTTTGGCGGATACTAAGGAACTGGTGTCATCTACAGTGTCTGGGGCTCAAGAAATGGTATCTAGCTCAGTGTCTAGTGCGAAGGAAACAGTGGCCACCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-122-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-3470b(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGTGCTCGGCCTGGTTTTGGCGGATA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPLIN3_498_ORF_1
1.0936
0.423156291
0.995009363
942
ORF sequence:
ATGGTATCTAGCTCAGTGTCTAGTGCGAAGGAAACAGTGGCCACCCGGGTCACAGGAGCGGTGGATGTGACCCTCGGGGCTGTGCAGAACAGCGTGGACAAGACCAAGTCAGCAATGACCAGCGGTGTCCAATCAGTCATGGGCTCACGTGTGGGACAGATGGTGATTAGCGGAGTGGACAGAGTGCTTGTGAAATCAGAGGCCTGGGCAGACAATCGCCTGCCCCTGACAGAGGCGGAGCTAGCTCTGATTGCCACACCCCCGGAGGACTCGGACATGGCCTCACTGCAGCAGCAGCGACAGGAGCAGAACTACTTTGTCCGGTTGGGCTCTCTCTCTGAGAGGCTGCGCAATCACGCCTATGAACACTCCCTCGGCAAGCTGCAGAATGCCAGGCAGAAGGCACAGGAGACGCTGCAGCAGCTAACAAGTGTGCTCGGCCTGGTTTTGGCGGATACTAAGGAACTGGTGTCATCTACAGTGTCTGGGGCTCAAGAAATGGTATCTAGCTCAGTGTCTAGTGCGAAGGAAACAGTGGCCACCCGGGTCACAGGAGCGGTGGATGTGACCCTCGGGGCTGTGCAGAACAGCGTGGACAAGACCAAGTCAGCAATGACCAGCGGTGTCCAATCAGTCATGGGCTCACGTGTGGGACAGATGGTGATTAGCGGAGTGGACAGAGTGCTTGTGAAATCAGAGGCCTGGGCAGACAATCGCCTGCCCCTGACAGAGGCGGAGCTAGCTCTGATTGCCACACCCCCGGAGGACTCGGACATGGCCTCACTGCAGCAGCAGCGACAGGAGCAGAACTACTTTGTCCGGTTGGGCTCTCTCTCTGAGAGGCTGCGCAATCACGCCTATGAACACTCCCTCGGCAAGCTGCAGAATGCCAGGCAGAAGGCACAGGAGACGCTGCAGCAGCTAACAAGTGTGCTCGGCCTG
Peptide sequence:
MVSSSVSSAKETVATRVTGAVDVTLGAVQNSVDKTKSAMTSGVQSVMGSRVGQMVISGVDRVLVKSEAWADNRLPLTEAELALIATPPEDSDMASLQQQRQEQNYFVRLGSLSERLRNHAYEHSLGKLQNARQKAQETLQQLTSVLGLVLADTKELVSSTVSGAQEMVSSSVSSAKETVATRVTGAVDVTLGAVQNSVDKTKSAMTSGVQSVMGSRVGQMVISGVDRVLVKSEAWADNRLPLTEAELALIATPPEDSDMASLQQQRQEQNYFVRLGSLSERLRNHAYEHSLGKLQNARQKAQETLQQLTSVLGL
IRESfinder result
IRESfinder score
0.295467862
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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