top of page
mmu_circArhgap18_433
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap18_433
mm39_Chr. Position ID:
chr10|26721927|26726106|+
Gene name:
Arhgap18
Transcript:
ENSMUST00000176060.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,3943
Genomic length:
4179
Exon/intron sizes in nt:
1,97,236
Flanking exon/introns:
chr10:26629498-26721927|chr10:26726106-26730869
Splice length:
433
Other database IDs:
circAtlas: mmu-Arhgap18_0004
circBase: hsa_circ_0142289, circAtlas: hsa-ARHGAP18_0003, CIRCpedia: HSA_CIRCpedia_100158
Human Ortholog IDs:
Mature spliced Sequence:
TCGCAGATATGGCCAATACACCATAAACCAAGAAGGCTCCACCAAAGTTCCCGAGAGGCCTCCATTTGATCGATCGAGTTCTCAGGATTCCTTGGATGAATCAATGGAAGCCTATTGGACAGAACTAGAAAACATCAAGAGGTCGAATGAAAATCGCCAAGAAGGTCAAGAGGCCATAGTTGTCAAAGAACCTGATGAGGGAGAACTGGAAGAAGAATGGCTCAAAGAAGCAGGTCTATCCAATCTTTTTGGAGAGTCTATTGATGACCCGCAGGAAAGCATTCTGTTTTTATCTACACTGACCCGGACTCAGGCAGCAGCTGTTCAGAAACGGGTGGAAACGGTCTCCCAGACCTTGAGGAAGAAAAACAAACAGCACCACATTCGTGACGTCAGAGACATATTTGCTCAACAGAGAGAGGCACAAGAAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGAAACGGTCTCCCAGAC
60.32
GGGAACTTTGGTGGAGCCTT
60.18
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGAAACGGTCTCCCAGAC
60.32
CCTCTCGGGAACTTTGGTGG
60.32
157
PCR template sequence:
GGTGGAAACGGTCTCCCAGACCTTGAGGAAGAAAAACAAACAGCACCACATTCGTGACGTCAGAGACATATTTGCTCAACAGAGAGAGGCACAAGAAAAATCGCAGATATGGCCAATACACCATAAACCAAGAAGGCTCCACCAAAGTTCCCGAGAGGCCTCCATTTGATCGATCGAGTTCTCAGGATTCCTTGGATGAA
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-146a-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-1199-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCACAAGAAAAATCGCAGATATGGC
siRNA sets
TCTGCGATTTTTCTTGTGC,TATCTGCGATTTTTCTTGT,ATCTGCGATTTTTCTTGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP18_433_ORF_1
1.0314
0.146400088
0.533092194
399
ORF sequence:
ATGGAAGCCTATTGGACAGAACTAGAAAACATCAAGAGGTCGAATGAAAATCGCCAAGAAGGTCAAGAGGCCATAGTTGTCAAAGAACCTGATGAGGGAGAACTGGAAGAAGAATGGCTCAAAGAAGCAGGTCTATCCAATCTTTTTGGAGAGTCTATTGATGACCCGCAGGAAAGCATTCTGTTTTTATCTACACTGACCCGGACTCAGGCAGCAGCTGTTCAGAAACGGGTGGAAACGGTCTCCCAGACCTTGAGGAAGAAAAACAAACAGCACCACATTCGTGACGTCAGAGACATATTTGCTCAACAGAGAGAGGCACAAGAAAAATCGCAGATATGGCCAATACACCATAAACCAAGAAGGCTCCACCAAAGTTCCCGAGAGGCCTCCATTTGA
Peptide sequence:
MEAYWTELENIKRSNENRQEGQEAIVVKEPDEGELEEEWLKEAGLSNLFGESIDDPQESILFLSTLTRTQAAAVQKRVETVSQTLRKKNKQHHIRDVRDIFAQQREAQEKSQIWPIHHKPRRLHQSSREASI
IRESfinder result
IRESfinder score
0.476599267
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page