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mmu_circLncppara_317
Basic information of circular RNA
PanCircBase ID:
mmu_circLncppara_317
mm39_Chr. Position ID:
chr15|85577737|85588491|+
Gene name:
Lncppara
Transcript:
ENSMUST00000230913.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,1378,7370,10699
Genomic length:
10754
Exon/intron sizes in nt:
82,66,114,55
Flanking exon/introns:
chr15:85567515-85577737|chr15:85588491-85590754
Splice length:
317
Other database IDs:
circAtlas: mmu-intergenic_000045
Human Ortholog IDs:
Mature spliced Sequence:
AACCTGGATGCTCCTAAGGACCCCCCAGGAAAGTAAGCACCTGGCATGTGTATCAGAAGACCCCCTATGGCCTCACACACAGGCACCGGCTTCTTCTTGACAACTTCCCTGGGTGACTCTTAGAACTCAATGGCCACGTCCAGCTCAGAGATCAGAAGCAGCGCGCGTCCCAGAGCGCTACCATAATGATGCCGTCCAGGTCCACAGTACAACCGGCTGCCTTGGTCATTGCCGTAATGACAGTACATTCCAACTTCTCAAGGTGGTCAGGAAGTGGAACCAAGCAGGAAGTTCTGCATGCCTATGGCTTCCCTGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTGGTCATTGCCGTAA
60.25
GGTGCTTACTTTCCTGGGGG
60.32
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCTTGGTCATTGCCGTAA
60.25
GAGGCCATAGGGGGTCTTCT
60.4
174
PCR template sequence:
TGCCTTGGTCATTGCCGTAATGACAGTACATTCCAACTTCTCAAGGTGGTCAGGAAGTGGAACCAAGCAGGAAGTTCTGCATGCCTATGGCTTCCCTGTGAACCTGGATGCTCCTAAGGACCCCCCAGGAAAGTAAGCACCTGGCATGTGTATCAGAAGACCCCCTATGGCCTCACACACAGGCACCGGCTTCTTCTTGA
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-1a-3p(1), mmu-miR-138-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCTTCCCTGTGAACCTGGATGCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCLNCPPARA_317_ORF_1
0.808
0.155627756
0.129349089
168
ORF sequence:
ATGATGCCGTCCAGGTCCACAGTACAACCGGCTGCCTTGGTCATTGCCGTAATGACAGTACATTCCAACTTCTCAAGGTGGTCAGGAAGTGGAACCAAGCAGGAAGTTCTGCATGCCTATGGCTTCCCTGTGAACCTGGATGCTCCTAAGGACCCCCCAGGAAAGTAA
Peptide sequence:
MMPSRSTVQPAALVIAVMTVHSNFSRWSGSGTKQEVLHAYGFPVNLDAPKDPPGK
IRESfinder result
IRESfinder score
0.185199043
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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