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mmu_circPcsk2_176
Basic information of circular RNA
PanCircBase ID:
mmu_circPcsk2_176
mm39_Chr. Position ID:
chr2|143626447|143626623|+
Gene name:
Pcsk2
Transcript:
ENSMUST00000028905.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
8
Exon/intron offsets:
0
Genomic length:
176
Exon/intron sizes in nt:
176
Flanking exon/introns:
chr2:143615909-143626447|chr2:143626623-143635008
Splice length:
176
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GGATCCGGATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAGTGCAAGCTGGGGCCCCACAGACAATGGGAAGACGGTTGATGGGCCCCGAGAGCTCACACTCCAGGCCATGGCTGATGGCGTGAACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGGAAGACGGTTGATGGG
59.74
CATGTGGCTGATGGAGGAGG
60.18
130
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGGGAAGACGGTTGATGGG
59.74
GATCAGTTGAGGCATGTGGC
59.26
142
PCR template sequence:
TGCAAGCTGGGGCCCCACAGACAATGGGAAGACGGTTGATGGGCCCCGAGAGCTCACACTCCAGGCCATGGCTGATGGCGTGAACAAGGGATCCGGATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCGTGAACAAGGGATCCGGATGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCSK2_176_ORF_1
0.9927
0.382990674
0.39877324
198
ORF sequence:
ATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAGTGCAAGCTGGGGCCCCACAGACAATGGGAAGACGGTTGATGGGCCCCGAGAGCTCACACTCCAGGCCATGGCTGATGGCGTGAACAAGGGATCCGGATGCTGGACCAGCCCTTTATGA
Peptide sequence:
MLDQPFMTDIIEASSISHMPQLIDIYSASWGPTDNGKTVDGPRELTLQAMADGVNKGSGCWTSPL
IRESfinder result
IRESfinder score
0.075181642
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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