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mmu_circAip_390
Basic information of circular RNA
PanCircBase ID:
mmu_circAip_390
mm39_Chr. Position ID:
chr19|4168086|4171545|-
Gene name:
Aip
Transcript:
ENSMUST00000117831.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,3249
Genomic length:
3459
Exon/intron sizes in nt:
1,80,210
Flanking exon/introns:
chr19:4166170-4168086|chr19:4171545-4175729
Splice length:
390
Other database IDs:
CIRCpedia: MMU_CIRCpedia_19555, circAtlas: mmu-Aip_0001
Human Ortholog IDs:
Mature spliced Sequence:
TCAAAATGGCGCTTGCTCAGAAGCTGCCGAGGCGCTAGGAGTTGCCGAAACAGGTCCGGAAGCTACCGAGCGAGTCCGGAAGTTGCCGAAAGGGAGCAGCGGGGAAGGAGGATGGCGGATCTCATCGCAAGACTTCGAGAGGACGGGATCCAAAAGCGTGTGATACAGGAGGGCCGAGGAGAGTTGCCGGACTTTCAGGATGGCACTAAGGCCACGTTCCACTTTCGGACGCTGCACAGTGACAATGAAGGCTCCGTTATAGATGACAGCCGAACACGAGGCAAGCCCATGGAGCTCATCGTTGGCAAGAAGTTCAAGTTGCCTGTGTGGGAGACCATCGTGTGCACCATGCGTGAGGGGGAGATTGCCCAGTTCCTCTGTGACATCAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGTTGCCTGTGTGGGAGAC
60.18
TAGCTTCCGGACCTGTTTCG
59.75
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAAGTTGCCTGTGTGGGAGA
60.18
TAGCTTCCGGACCTGTTTCG
59.75
141
PCR template sequence:
GGAGCTCATCGTTGGCAAGAAGTTCAAGTTGCCTGTGTGGGAGACCATCGTGTGCACCATGCGTGAGGGGGAGATTGCCCAGTTCCTCTGTGACATCAAGTCAAAATGGCGCTTGCTCAGAAGCTGCCGAGGCGCTAGGAGTTGCCGAAACAGGTCCGGAAGCTACCGAGCGAGTCCGGAAGTTGCCGAAAGGGAGCAGC
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-205-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-431-5p(1), mmu-miR-377-3p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTGACATCAAGTCAAAATGGCGCT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAIP_390_ORF_1
1.0747
0.476161487
0.971019978
669
ORF sequence:
ATGGCGGATCTCATCGCAAGACTTCGAGAGGACGGGATCCAAAAGCGTGTGATACAGGAGGGCCGAGGAGAGTTGCCGGACTTTCAGGATGGCACTAAGGCCACGTTCCACTTTCGGACGCTGCACAGTGACAATGAAGGCTCCGTTATAGATGACAGCCGAACACGAGGCAAGCCCATGGAGCTCATCGTTGGCAAGAAGTTCAAGTTGCCTGTGTGGGAGACCATCGTGTGCACCATGCGTGAGGGGGAGATTGCCCAGTTCCTCTGTGACATCAAGTCAAAATGGCGCTTGCTCAGAAGCTGCCGAGGCGCTAGGAGTTGCCGAAACAGGTCCGGAAGCTACCGAGCGAGTCCGGAAGTTGCCGAAAGGGAGCAGCGGGGAAGGAGGATGGCGGATCTCATCGCAAGACTTCGAGAGGACGGGATCCAAAAGCGTGTGATACAGGAGGGCCGAGGAGAGTTGCCGGACTTTCAGGATGGCACTAAGGCCACGTTCCACTTTCGGACGCTGCACAGTGACAATGAAGGCTCCGTTATAGATGACAGCCGAACACGAGGCAAGCCCATGGAGCTCATCGTTGGCAAGAAGTTCAAGTTGCCTGTGTGGGAGACCATCGTGTGCACCATGCGTGAGGGGGAGATTGCCCAGTTCCTCTGTGACATCAAG
Peptide sequence:
MADLIARLREDGIQKRVIQEGRGELPDFQDGTKATFHFRTLHSDNEGSVIDDSRTRGKPMELIVGKKFKLPVWETIVCTMREGEIAQFLCDIKSKWRLLRSCRGARSCRNRSGSYRASPEVAEREQRGRRMADLIARLREDGIQKRVIQEGRGELPDFQDGTKATFHFRTLHSDNEGSVIDDSRTRGKPMELIVGKKFKLPVWETIVCTMREGEIAQFLCDIK
IRESfinder result
IRESfinder score
0.145021374
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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