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mmu_circRab22a_369
Basic information of circular RNA
PanCircBase ID:
mmu_circRab22a_369
mm39_Chr. Position ID:
chr2|173503224|173537792|+
Gene name:
Rab22a
Transcript:
ENSMUST00000142820.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,33678,33827,34458
Genomic length:
34568
Exon/intron sizes in nt:
8,07,21,07,110
Flanking exon/introns:
chr2:173501934-173503224|chr2:173537792-173542814
Splice length:
369
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GATACGGGTGTGGGTAAATCGAGCATCGTGTGGCGGTTTGTGGAAGACAGTTTTGATCCGAATATCAATCCAACCATAGGTTTCGTGCATTGGCACCAATGTACTATCGAGGGTCAGCAGCAGCCATCATCGTTTACGACATCACAAAAGAAGAGACGTTTTCAACTCTGAAGAACTGGGTGAGAGAGCTCCGCCAGCACGGCCCCCCCAGCATTGTCGTTGCCATCGCAGGGAACAAGTGCGATCTTACTGATGTCAGAGAAGTCATGGAGAGAGATGCTAAGGACTACGCAGATTCCATTCATGCCATCTTTGTAGAGACCAGCGCAAAAAATGCAATAAACATAAATGAACTCTTTATAGAAATTA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTTTGTAGAGACCAGCGCA
59.03
TGCACGAAACCTATGGTTGGA
59.93
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCAGATTCCATTCATGCCA
58.97
TGCACGAAACCTATGGTTGGA
59.93
169
PCR template sequence:
GAGAGAGATGCTAAGGACTACGCAGATTCCATTCATGCCATCTTTGTAGAGACCAGCGCAAAAAATGCAATAAACATAAATGAACTCTTTATAGAAATTAGATACGGGTGTGGGTAAATCGAGCATCGTGTGGCGGTTTGTGGAAGACAGTTTTGATCCGAATATCAATCCAACCATAGGTTTCGTGCATTGGCACCAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-92a-3p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTATAGAAATTAGATACGGGTGTGG
siRNA sets
ACACCCGTATCTAATTTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRAB22A_369_ORF_1
1.0578
0.246671002
0.448581442
288
ORF sequence:
ATGTACTATCGAGGGTCAGCAGCAGCCATCATCGTTTACGACATCACAAAAGAAGAGACGTTTTCAACTCTGAAGAACTGGGTGAGAGAGCTCCGCCAGCACGGCCCCCCCAGCATTGTCGTTGCCATCGCAGGGAACAAGTGCGATCTTACTGATGTCAGAGAAGTCATGGAGAGAGATGCTAAGGACTACGCAGATTCCATTCATGCCATCTTTGTAGAGACCAGCGCAAAAAATGCAATAAACATAAATGAACTCTTTATAGAAATTAGATACGGGTGTGGGTAA
Peptide sequence:
MYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEIRYGCG
IRESfinder result
IRESfinder score
0.407479039
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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