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mmu_circParn_230
Basic information of circular RNA
PanCircBase ID:
mmu_circParn_230
mm39_Chr. Position ID:
chr16|13482519|13483845|-
Gene name:
Parn
Transcript:
ENSMUST00000058884.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,165,1246
Genomic length:
1326
Exon/intron sizes in nt:
82,68,80
Flanking exon/introns:
chr16:13474840-13482519|chr16:13483845-13485397
Splice length:
230
Other database IDs:
CIRCpedia: MMU_CIRCpedia_8453, circAtlas: mmu-Parn_0009
circBase: hsa_circ_0037975, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_130128
Human Ortholog IDs:
Mature spliced Sequence:
GAATCAGCAATGGACCCTCAGTAACAGCATTAACAAGTGGTTTTGACACCCCAGAAGAGAGATATCAGAAGCTTAAAAAGCATTCCATGGACTTTTTGCTGTTTCAGTTTGGCCTTTGTGCTTTTAAGTATGACCACACAGATTCCAAGCATGTAACGAAGTCATTTAACTTCTATGTTTTCCCCAAGCCTTTCAGTAGGTCCTCACCAGATGTCAAGTTTGTTTGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACCACACAGATTCCAAGCA
59.86
TCTGGGGTGTCAAAACCACT
59.08
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACCACACAGATTCCAAGCA
59.86
TGGGGTGTCAAAACCACTTGT
60.27
153
PCR template sequence:
TGACCACACAGATTCCAAGCATGTAACGAAGTCATTTAACTTCTATGTTTTCCCCAAGCCTTTCAGTAGGTCCTCACCAGATGTCAAGTTTGTTTGCCAGGAATCAGCAATGGACCCTCAGTAACAGCATTAACAAGTGGTTTTGACACCCCAGAAGAGAGATATCAGAAGCTTAAAAAGCATTCCATGGACTTTTTGCT
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-155-5p(1), mmu-miR-495-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GTTTGTTTGCCAGGAATCAGCAATGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPARN_230_ORF_1
0.8133
-0.014980872
0.069762765
168
ORF sequence:
ATGGACTTTTTGCTGTTTCAGTTTGGCCTTTGTGCTTTTAAGTATGACCACACAGATTCCAAGCATGTAACGAAGTCATTTAACTTCTATGTTTTCCCCAAGCCTTTCAGTAGGTCCTCACCAGATGTCAAGTTTGTTTGCCAGGAATCAGCAATGGACCCTCAGTAA
Peptide sequence:
MDFLLFQFGLCAFKYDHTDSKHVTKSFNFYVFPKPFSRSSPDVKFVCQESAMDPQ
IRESfinder result
IRESfinder score
0.852880269
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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