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mmu_ciAamp_672
Basic information of circular RNA
PanCircBase ID:
mmu_ciAamp_672
mm39_Chr. Position ID:
chr1|74322372|74323044|-
Gene name:
Aamp
Transcript:
ENSMUST00000006462.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
672
Exon/intron sizes in nt:
672
Flanking exon/introns:
chr1:74322372-74323044
Splice length:
672
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGCCTTTGAACATCTCAGATCAGTGCAGATGGGCTTTTGAGTATGGCCTGTTGGTCCTAGGCAGCTATTATAAGAGACCAAAGTGAAAGCCACCTACTTTGGCCTGCAGGATATTCAAAGGAAGGGCCATAGGGCACTGGGGTTAAGTGTGACCCCTGGGTTCAAATCCTACCTCTGCTGTTTAGCAGTCTGTCAGCTTTGTTAGCTTTCTGGATCTTGGTATTCTTTAAAATATATATATATATATATATATATATAAAATCTTGTATGAAAGTGAATGGAAGTAACCTAAGTGGAAATTAAAGGTAGTTTACATTCCAGAAGGGGCATTAATAATAATCTCGGATGCCAGCCTCATGAAACTCTCATAACTTAATTCATACCTAGCCTGGTATGGCCTGTCCTGTCAGCTGTGCACCTCAGAGAACGTGGTAAGGGGAACAGCACAGCAGGGGGCTATGCTCCAGAGGAGGTCACAGCTCTGTGGGCTCTGGAAGGGTTTCTCTAACAACCTGAGGCTCCAGACAAGAACTGGATGCAGCTGTCCCAGGAAAGAGCAGCTATGGCTTTGGGGAAAAAGGGAGTGTGCTTCCTGAAGGTTCTGAAAGACAGAGCTCTAGGTGAGAACCCGGTTCCATCCCCATTCTCATGGACTATGTCTTGGGACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGAAAAAGGGAGTGTGCT
60.18
GGACCAACAGGCCATACTCA
59.38
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGGAAAAAGGGAGTGTGCT
60.18
AGGCCATACTCAAAAGCCCA
59.3
151
PCR template sequence:
TGGGGAAAAAGGGAGTGTGCTTCCTGAAGGTTCTGAAAGACAGAGCTCTAGGTGAGAACCCGGTTCCATCCCCATTCTCATGGACTATGTCTTGGGACAGGTAGGCCTTTGAACATCTCAGATCAGTGCAGATGGGCTTTTGAGTATGGCCTGTTGGTCCTAGGCAGCTATTATAAGAGACCAAAGTGAAAGCCACCTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-let-7e-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-298-5p(1), mmu-miR-382-3p(1), mmu-miR-370-3p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGTCTTGGGACAGGTAGGCCTTTGAA
siRNA sets
TTCAAAGGCCTACCTGTCC, AAAGGCCTACCTGTCCCAA, TCAAAGGCCTACCTGTCCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIAAMP_672_ORF_1
0.8685
0.003378604
0.066003595
138
ORF sequence:
ATGCAGCTGTCCCAGGAAAGAGCAGCTATGGCTTTGGGGAAAAAGGGAGTGTGCTTCCTGAAGGTTCTGAAAGACAGAGCTCTAGGTGAGAACCCGGTTCCATCCCCATTCTCATGGACTATGTCTTGGGACAGGTAG
Peptide sequence:
MQLSQERAAMALGKKGVCFLKVLKDRALGENPVPSPFSWTMSWDR
IRESfinder result
IRESfinder score
0.643452885
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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