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mmu_circPcsk2_392
Basic information of circular RNA
PanCircBase ID:
mmu_circPcsk2_392
mm39_Chr. Position ID:
chr2|143626447|143635224|+
Gene name:
Pcsk2
Transcript:
ENSMUST00000028905.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
8,9
Exon/intron offsets:
0,8561
Genomic length:
8777
Exon/intron sizes in nt:
1,76,216
Flanking exon/introns:
chr2:143615909-143626447|chr2:143635224-143637863
Splice length:
392
Other database IDs:
circBase: hsa_circ_0114752, circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGATCCGGATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAGTGCAAGCTGGGGCCCCACAGACAATGGGAAGACGGTTGATGGGCCCCGAGAGCTCACACTCCAGGCCATGGCTGATGGCGTGAACAAGGGCCGTGGGGGCAAAGGCAGCATCTATGTGTGGGCCTCTGGGGACGGTGGCAGCTACGATGACTGCAACTGTGACGGCTATGCTTCAAGCATGTGGACCATCTCCATCAACTCAGCCATCAATGATGGCAGGACTGCCTTGTATGATGAGAGTTGCTCTTCCACCTTAGCATCCACCTTCAGCAATGGGAGGAAGAGGAATCCTGAGGCTGGTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACCTTCAGCAATGGGAGGA
59.67
CCCCAGCTTGCACTGTAGAT
59.75
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCACCTTCAGCAATGGGAG
59.67
CCCCAGCTTGCACTGTAGAT
59.75
145
PCR template sequence:
CATCAATGATGGCAGGACTGCCTTGTATGATGAGAGTTGCTCTTCCACCTTAGCATCCACCTTCAGCAATGGGAGGAAGAGGAATCCTGAGGCTGGTGTGGGATCCGGATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAGTGCAAGCTGGGG
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-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-122-5p(1), mmu-miR-381-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAGGCTGGTGTGGGATCCGGATGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPCSK2_392_ORF_1
0.8902
0.36444469
0.705079878
414
ORF sequence:
ATGCTGGACCAGCCCTTTATGACAGACATCATCGAAGCCTCCTCCATCAGCCACATGCCTCAACTGATCGACATCTACAGTGCAAGCTGGGGCCCCACAGACAATGGGAAGACGGTTGATGGGCCCCGAGAGCTCACACTCCAGGCCATGGCTGATGGCGTGAACAAGGGCCGTGGGGGCAAAGGCAGCATCTATGTGTGGGCCTCTGGGGACGGTGGCAGCTACGATGACTGCAACTGTGACGGCTATGCTTCAAGCATGTGGACCATCTCCATCAACTCAGCCATCAATGATGGCAGGACTGCCTTGTATGATGAGAGTTGCTCTTCCACCTTAGCATCCACCTTCAGCAATGGGAGGAAGAGGAATCCTGAGGCTGGTGTGGGATCCGGATGCTGGACCAGCCCTTTATGA
Peptide sequence:
MLDQPFMTDIIEASSISHMPQLIDIYSASWGPTDNGKTVDGPRELTLQAMADGVNKGRGGKGSIYVWASGDGGSYDDCNCDGYASSMWTISINSAINDGRTALYDESCSSTLASTFSNGRKRNPEAGVGSGCWTSPL
IRESfinder result
IRESfinder score
0.14798591
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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