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mmu_circPcsk2_481
Basic information of circular RNA
PanCircBase ID:
mmu_circPcsk2_481
mm39_Chr. Position ID:
chr2|143615820|143635224|+
Gene name:
Pcsk2
Transcript:
ENSMUST00000028905.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
7,8,9
Exon/intron offsets:
0,10627,19188
Genomic length:
19404
Exon/intron sizes in nt:
8,91,76,216
Flanking exon/introns:
chr2:143591121-143615820|chr2:143635224-143637863
Splice length:
481
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CCATGGAACTAGGTGTGCAGGAGAAGTTTCTGCTGCAGCCAGCAACAATATCTGTGGAGTCGGCGTAGCATACAACTCCAAGGTGGCAGGGATCCGGATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAGTGCAAGCTGGGGCCCCACAGACAATGGGAAGACGGTTGATGGGCCCCGAGAGCTCACACTCCAGGCCATGGCTGATGGCGTGAACAAGGGCCGTGGGGGCAAAGGCAGCATCTATGTGTGGGCCTCTGGGGACGGTGGCAGCTACGATGACTGCAACTGTGACGGCTATGCTTCAAGCATGTGGACCATCTCCATCAACTCAGCCATCAATGATGGCAGGACTGCCTTGTATGATGAGAGTTGCTCTTCCACCTTAGCATCCACCTTCAGCAATGGGAGGAAGAGGAATCCTGAGGCTGGTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCTTCCACCTTAGCATCCA
59.79
GGAGTTGTATGCTACGCCGA
59.9
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTCTTCCACCTTAGCATCC
59.79
GGAGTTGTATGCTACGCCGA
59.9
142
PCR template sequence:
CATCAATGATGGCAGGACTGCCTTGTATGATGAGAGTTGCTCTTCCACCTTAGCATCCACCTTCAGCAATGGGAGGAAGAGGAATCCTGAGGCTGGTGTGCCATGGAACTAGGTGTGCAGGAGAAGTTTCTGCTGCAGCCAGCAACAATATCTGTGGAGTCGGCGTAGCATACAACTCCAAGGTGGCAGGGATCCGGATG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-122-5p(1), mmu-miR-381-3p(1), mmu-miR-127-3p(1), mmu-miR-362-5p(1), mmu-miR-207(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAGGCTGGTGTGCCATGGAACTAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCSK2_481_ORF_1
0.8742
0.365281224
0.825710831
513
ORF sequence:
ATGGGAGGAAGAGGAATCCTGAGGCTGGTGTGCCATGGAACTAGGTGTGCAGGAGAAGTTTCTGCTGCAGCCAGCAACAATATCTGTGGAGTCGGCGTAGCATACAACTCCAAGGTGGCAGGGATCCGGATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAGTGCAAGCTGGGGCCCCACAGACAATGGGAAGACGGTTGATGGGCCCCGAGAGCTCACACTCCAGGCCATGGCTGATGGCGTGAACAAGGGCCGTGGGGGCAAAGGCAGCATCTATGTGTGGGCCTCTGGGGACGGTGGCAGCTACGATGACTGCAACTGTGACGGCTATGCTTCAAGCATGTGGACCATCTCCATCAACTCAGCCATCAATGATGGCAGGACTGCCTTGTATGATGAGAGTTGCTCTTCCACCTTAGCATCCACCTTCAGCAATGGGAGGAAGAGGAATCCTGAGGCTGGTGTG
Peptide sequence:
MGGRGILRLVCHGTRCAGEVSAAASNNICGVGVAYNSKVAGIRMLDQPFMTDIIEASSISHMPQLIDIYSASWGPTDNGKTVDGPRELTLQAMADGVNKGRGGKGSIYVWASGDGGSYDDCNCDGYASSMWTISINSAINDGRTALYDESCSSTLASTFSNGRKRNPEAGV
IRESfinder result
IRESfinder score
0.17218996
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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