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mmu_circPigk_259
Basic information of circular RNA
PanCircBase ID:
mmu_circPigk_259
mm39_Chr. Position ID:
chr3|152528263|152535548|+
Gene name:
Pigk
Transcript:
ENSMUST00000162642.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
11,12
Exon/intron offsets:
0,7117
Genomic length:
7285
Exon/intron sizes in nt:
91,168
Flanking exon/introns:
chr3:152472160-152528263|chr3:152535548-152545712
Splice length:
259
Other database IDs:
circAtlas: mmu-Pigk_0007
Human Ortholog IDs:
Mature spliced Sequence:
GATGTAATCTCAGCTACCGCTTAAGCACCACATCTGCCTGTGTGCTGCCAGGCTCCCTGCCATGATCATCACGGACTAAACCTCTGAAACTAGAGGCTCGTAAGACTTTGTCACATCTTCCCAGAAGAATGACGCCAGGCTAATGACAAGAAAATATCAGATGTGTGGGAAATTCTACAAAGTGACTGAGCACCAAGAAGAGCTCTCCAAAGGTGACAAGGTCATGAAAGGCGAGAGACCTGAAGAGGCTGAGGGCACG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCACCAAGAAGAGCTCTCCA
59.68
CGTGATGATCATGGCAGGGA
59.89
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCACCAAGAAGAGCTCTCCA
59.68
TGATGATCATGGCAGGGAGC
59.89
141
PCR template sequence:
GATGTGTGGGAAATTCTACAAAGTGACTGAGCACCAAGAAGAGCTCTCCAAAGGTGACAAGGTCATGAAAGGCGAGAGACCTGAAGAGGCTGAGGGCACGGATGTAATCTCAGCTACCGCTTAAGCACCACATCTGCCTGTGTGCTGCCAGGCTCCCTGCCATGATCATCACGGACTAAACCTCTGAAACTAGAGGCTCG
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
GGCTGAGGGCACGGATGTAATCTCAG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPIGK_259_ORF_1
0.8877
0.227479743
0.160182801
141
ORF sequence:
ATGACAAGAAAATATCAGATGTGTGGGAAATTCTACAAAGTGACTGAGCACCAAGAAGAGCTCTCCAAAGGTGACAAGGTCATGAAAGGCGAGAGACCTGAAGAGGCTGAGGGCACGGATGTAATCTCAGCTACCGCTTAA
Peptide sequence:
MTRKYQMCGKFYKVTEHQEELSKGDKVMKGERPEEAEGTDVISATA
IRESfinder result
IRESfinder score
0.228664752
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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