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mmu_circArhgap18_321
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap18_321
mm39_Chr. Position ID:
chr10|26753152|26756766|+
Gene name:
Arhgap18
Transcript:
ENSMUST00000039557.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
8,9,10
Exon/intron offsets:
0,1734,3531
Genomic length:
3614
Exon/intron sizes in nt:
78,160,83
Flanking exon/introns:
chr10:26748760-26753152|chr10:26756766-26763776
Splice length:
321
Other database IDs:
circAtlas: mmu-Arhgap18_0029
CIRCpedia: HSA_CIRCpedia_100150
Human Ortholog IDs:
Mature spliced Sequence:
CTGATTTCTCGAATTGAAGAAGGCAGTCTGGAAACCGAGGGCCTCCTACGGATACCAGGAGCAGCCATGAGAATCAAGAATCTTTGCCAAGAACTAGAAGCGAAATTTTACGAGGGGACTTTCAATTGGGAAAGTGTCAAACAGCACGATGCGGCCAGCCTGCTGAAGCTCTTTCTGAGAGAATTGCCCCAGCCACTGCTGAGCATGGAGTATCTCAAAGCCTTCCAAGCTGTCCAGAATCTTCCAACCAGAAAGGAACAGTTGCAGGCTTTGAACCTCCTTGTCATTCTTCTACCTGACGCAAACAGAGACACACTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAAAGGAACAGTTGCAGGC
60
ATTCTCATGGCTGCTCCTGG
59.82
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAACAGTTGCAGGCTTTGA
58.97
ATTCTCATGGCTGCTCCTGG
59.82
141
PCR template sequence:
CTTCCAAGCTGTCCAGAATCTTCCAACCAGAAAGGAACAGTTGCAGGCTTTGAACCTCCTTGTCATTCTTCTACCTGACGCAAACAGAGACACACTGAAGCTGATTTCTCGAATTGAAGAAGGCAGTCTGGAAACCGAGGGCCTCCTACGGATACCAGGAGCAGCCATGAGAATCAAGAATCTTTGCCAAGAACTAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGACACACTGAAGCTGATTTCTCGAA
siRNA sets
AATCAGCTTCAGTGTGTCT, TTCGAGAAATCAGCTTCAG, AAATCAGCTTCAGTGTGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP18_321_ORF_1
1.1492
0.226501413
0.87671232
576
ORF sequence:
ATGAGAATCAAGAATCTTTGCCAAGAACTAGAAGCGAAATTTTACGAGGGGACTTTCAATTGGGAAAGTGTCAAACAGCACGATGCGGCCAGCCTGCTGAAGCTCTTTCTGAGAGAATTGCCCCAGCCACTGCTGAGCATGGAGTATCTCAAAGCCTTCCAAGCTGTCCAGAATCTTCCAACCAGAAAGGAACAGTTGCAGGCTTTGAACCTCCTTGTCATTCTTCTACCTGACGCAAACAGAGACACACTGAAGCTGATTTCTCGAATTGAAGAAGGCAGTCTGGAAACCGAGGGCCTCCTACGGATACCAGGAGCAGCCATGAGAATCAAGAATCTTTGCCAAGAACTAGAAGCGAAATTTTACGAGGGGACTTTCAATTGGGAAAGTGTCAAACAGCACGATGCGGCCAGCCTGCTGAAGCTCTTTCTGAGAGAATTGCCCCAGCCACTGCTGAGCATGGAGTATCTCAAAGCCTTCCAAGCTGTCCAGAATCTTCCAACCAGAAAGGAACAGTTGCAGGCTTTGAACCTCCTTGTCATTCTTCTACCTGACGCAAACAGAGACACACTGAAG
Peptide sequence:
MRIKNLCQELEAKFYEGTFNWESVKQHDAASLLKLFLRELPQPLLSMEYLKAFQAVQNLPTRKEQLQALNLLVILLPDANRDTLKLISRIEEGSLETEGLLRIPGAAMRIKNLCQELEAKFYEGTFNWESVKQHDAASLLKLFLRELPQPLLSMEYLKAFQAVQNLPTRKEQLQALNLLVILLPDANRDTLK
IRESfinder result
IRESfinder score
0.602298116
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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