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mmu_circParn_461
Basic information of circular RNA
PanCircBase ID:
mmu_circParn_461
mm39_Chr. Position ID:
chr16|13469661|13482752|-
Gene name:
Parn
Transcript:
ENSMUST00000058884.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
9,8,7,6,5,4
Exon/intron offsets:
0,847,2651,5118,12858,13023
Genomic length:
13091
Exon/intron sizes in nt:
39,66,145,61,82,68
Flanking exon/introns:
chr16:13468541-13469661|chr16:13482752-13483765
Splice length:
461
Other database IDs:
circBase: hsa_circ_0105050, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_120374
Human Ortholog IDs:
Mature spliced Sequence:
CATTCCATGGACTTTTTGCTGTTTCAGTTTGGCCTTTGTGCTTTTAAGTATGACCACACAGATTCCAAGCATGTAACGAAGTCATTTAACTTCTATGTTTTCCCCAAGCCTTTCAGTAGGTCCTCACCAGATGTCAAGTTTGTTTGCCAGAGCTCCAGCATTGACTTCCTGGCGAGCCAAGGATTTGACTTTAATAAAGTGTTTTGCAGTGGGATTCCATATCTGAATCAGGAAGAAGAAAGGCAGCTGAGAGAGCAATTCGATGAAAAACGGTCTCAAGCCAATGGGGCAGGAGCTCTGGCAAAATGTCCTGTGACCATCCCTGAGGATCAGAAGAAGTTTATTGACCAAGTAATAGAGAAGATAGAGGATTTCCTACAAAGTGAAGAGAAGAGGAGCCTGGAACTTGACCCATGCACTGGGTTCCAAAGAAAACTTATTTATCAGACTTTGAGTTGGAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGCCTGGAACTTGACC
60.04
TGCTTGGAATCTGTGTGGTCA
59.86
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGGAGCCTGGAACTTGACC
60.04
TGCTTGGAATCTGTGTGGTC
58.1
140
PCR template sequence:
AGATAGAGGATTTCCTACAAAGTGAAGAGAAGAGGAGCCTGGAACTTGACCCATGCACTGGGTTCCAAAGAAAACTTATTTATCAGACTTTGAGTTGGAACATTCCATGGACTTTTTGCTGTTTCAGTTTGGCCTTTGTGCTTTTAAGTATGACCACACAGATTCCAAGCATGTAACGAAGTCATTTAACTTCTATGTTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-152-3p(1), mmu-miR-495-3p(1), mmu-miR-362-5p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTGAGTTGGAACATTCCATGGACT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPARN_461_ORF_1
0.649
0.032827683
0.477092519
531
ORF sequence:
ATGGACTTTTTGCTGTTTCAGTTTGGCCTTTGTGCTTTTAAGTATGACCACACAGATTCCAAGCATGTAACGAAGTCATTTAACTTCTATGTTTTCCCCAAGCCTTTCAGTAGGTCCTCACCAGATGTCAAGTTTGTTTGCCAGAGCTCCAGCATTGACTTCCTGGCGAGCCAAGGATTTGACTTTAATAAAGTGTTTTGCAGTGGGATTCCATATCTGAATCAGGAAGAAGAAAGGCAGCTGAGAGAGCAATTCGATGAAAAACGGTCTCAAGCCAATGGGGCAGGAGCTCTGGCAAAATGTCCTGTGACCATCCCTGAGGATCAGAAGAAGTTTATTGACCAAGTAATAGAGAAGATAGAGGATTTCCTACAAAGTGAAGAGAAGAGGAGCCTGGAACTTGACCCATGCACTGGGTTCCAAAGAAAACTTATTTATCAGACTTTGAGTTGGAACATTCCATGGACTTTTTGCTGTTTCAGTTTGGCCTTTGTGCTTTTAAGTATGACCACACAGATTCCAAGCATGTAA
Peptide sequence:
MDFLLFQFGLCAFKYDHTDSKHVTKSFNFYVFPKPFSRSSPDVKFVCQSSSIDFLASQGFDFNKVFCSGIPYLNQEEERQLREQFDEKRSQANGAGALAKCPVTIPEDQKKFIDQVIEKIEDFLQSEEKRSLELDPCTGFQRKLIYQTLSWNIPWTFCCFSLAFVLLSMTTQIPSM
IRESfinder result
IRESfinder score
0.741466919
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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