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mmu_ciLonrf2_572
Basic information of circular RNA
PanCircBase ID:
mmu_ciLonrf2_572
mm39_Chr. Position ID:
chr1|38851721|38852293|-
Gene name:
Lonrf2
Transcript:
ENSMUST00000147695.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
572
Exon/intron sizes in nt:
572
Flanking exon/introns:
chr1:38851721-38852293
Splice length:
572
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTCAGCCGGCCGCTTCTTGCCGTTATGTTCTGAAATCAAAGGGGTAGAGTATTAGTACTCAACCGGTCGATCGTAAAAGGATCTCCACACAAGTGAAATCCATAAGGAAATGAGGAGACCGGCTTCTTTTCTAGAGCTAACTTTGCAGGGACTTCATATTGAAAAAGAGAGCCGGCATGGTGGGCACACCTTTAACCCCAGCACTCAGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGAGCTACACAGAGGAACCCTGTCTCGAAAAAACAAAAAGAAAAGAAAAGAGAGAACACTTAGATGAAATTTTAATTGTCCTGAATGTGTACCAACTTGATCAATTCTTCTTTTATATTTACTGGAATATGAATGTATATGATACTATCCATATTTTTATATTTATATATATATATATTTAATCAGTATCATTTGCTAGCACTGTTGTTGACACTTTTTATCCTGAAGAAATAAATTCATTGTATGGTGTCTTTCAGAAGTCCAGATGTTAGTTATAATGTCTGAAACTTTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCACTGTTGTTGACACTTT
56.02
ACGATCGACCGGTTGAGTAC
59.55
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCACTGTTGTTGACACTTTT
56.78
ACGATCGACCGGTTGAGTAC
59.55
173
PCR template sequence:
TAGCACTGTTGTTGACACTTTTTATCCTGAAGAAATAAATTCATTGTATGGTGTCTTTCAGAAGTCCAGATGTTAGTTATAATGTCTGAAACTTTTTCAGGTCAGCCGGCCGCTTCTTGCCGTTATGTTCTGAAATCAAAGGGGTAGAGTATTAGTACTCAACCGGTCGATCGTAAAAGGATCTCCACACAAGTGAAATC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-31-5p(1), mmu-miR-181b-5p(1), mmu-miR-669d-5p(1), mmu-miR-3087-3p(1), mmu-miR-3470b(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAAACTTTTTCAGGTCAGCCGGCCGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CILONRF2_572_ORF_5
0.6847
-0.338352577
0.008025603
78
ORF sequence:
ATGTTAGTTATAATGTCTGAAACTTTTTCAGGTCAGCCGGCCGCTTCTTGCCGTTATGTTCTGAAATCAAAGGGGTAG
Peptide sequence:
MLVIMSETFSGQPAASCRYVLKSKG
IRESfinder result
IRESfinder score
0.791576211
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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