top of page
mmu_circArhgef33_447
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef33_447
mm39_Chr. Position ID:
chr17|80642661|80655158|+
Gene name:
Arhgef33
Transcript:
ENSMUST00000068175.6
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,2036,11888,12375
Genomic length:
12497
Exon/intron sizes in nt:
110,50,165,122
Flanking exon/introns:
chr17:80614945-80642661|chr17:80655158-80656848
Splice length:
447
Other database IDs:
circAtlas: hsa-ARHGEF33_0011, CIRCpedia: HSA_CIRCpedia_163624
Human Ortholog IDs:
Mature spliced Sequence:
GTGCAGGGAAGGGGAGGTGGCCTGACCCAGGGCGAGGATGACGAAATGCTGAAGCGTGAGCTGGAGGAGAGACGCAACGGGCACCATGGAAAAATCCAAAGCCAAGCAAGGAGAGAATGAACACATGCCGGTGAATAACCCTTCCACACAGATTTACCAGCTGCAGGCCCTGGCCTCGGAACTGAAAACGGGCTTCACAGAAGCAATGCAGGAGCTGACACGGATCCAACATGGAGAATACGCTTTGGAAGAGAAGGTCAAGAGCTGCCGATGTTCAATGGAAGAGAAAGTCACGGAGATGAAGAATTCATTAAACTACTTCAAGGAAGAGCTGAGCAATGCAATGTCCATGATTCAGGCCATCACTTCCAAGCAAGAAGAAATGCAGCAGAAAATCGAACAGCTGCAGCAGGAGAAGAGAAGAGAATCTCGAAAGGTCAAAGCCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTGCAGCAGGAGAAGAGAA
60.04
GGATTTTTCCATGGTGCCCG
59.82
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGCCATCACTTCCAAGCAA
59.89
CAGCATTTCGTCATCCTCGC
59.7
142
PCR template sequence:
CCATGATTCAGGCCATCACTTCCAAGCAAGAAGAAATGCAGCAGAAAATCGAACAGCTGCAGCAGGAGAAGAGAAGAGAATCTCGAAAGGTCAAAGCCAAGTGCAGGGAAGGGGAGGTGGCCTGACCCAGGGCGAGGATGACGAAATGCTGAAGCGTGAGCTGGAGGAGAGACGCAACGGGCACCATGGAAAAATCCAAA
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-196a-5p(1), mmu-miR-127-3p(1), mmu-miR-1198-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
AGGTCAAAGCCAAGTGCAGGGAAGGG
siRNA sets
TTCCCTGCACTTGGCTTTG, CTGCACTTGGCTTTGACCT, CCTGCACTTGGCTTTGACC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF33_447_ORF_1
1.0549
0.47337518
0.80625496
387
ORF sequence:
ATGGAAAAATCCAAAGCCAAGCAAGGAGAGAATGAACACATGCCGGTGAATAACCCTTCCACACAGATTTACCAGCTGCAGGCCCTGGCCTCGGAACTGAAAACGGGCTTCACAGAAGCAATGCAGGAGCTGACACGGATCCAACATGGAGAATACGCTTTGGAAGAGAAGGTCAAGAGCTGCCGATGTTCAATGGAAGAGAAAGTCACGGAGATGAAGAATTCATTAAACTACTTCAAGGAAGAGCTGAGCAATGCAATGTCCATGATTCAGGCCATCACTTCCAAGCAAGAAGAAATGCAGCAGAAAATCGAACAGCTGCAGCAGGAGAAGAGAAGAGAATCTCGAAAGGTCAAAGCCAAGTGCAGGGAAGGGGAGGTGGCCTGA
Peptide sequence:
MEKSKAKQGENEHMPVNNPSTQIYQLQALASELKTGFTEAMQELTRIQHGEYALEEKVKSCRCSMEEKVTEMKNSLNYFKEELSNAMSMIQAITSKQEEMQQKIEQLQQEKRRESRKVKAKCREGEVA
IRESfinder result
IRESfinder score
0.210911002
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page