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mmu_circAifm2_528
Basic information of circular RNA
PanCircBase ID:
mmu_circAifm2_528
mm39_Chr. Position ID:
chr10|61561634|61564000|+
Gene name:
Aifm2
Transcript:
ENSMUST00000105455.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,509,1791,2273
Genomic length:
2366
Exon/intron sizes in nt:
199,116,120,93
Flanking exon/introns:
chr10:61551131-61561634|chr10:61564000-61568101
Splice length:
528
Other database IDs:
CIRCpedia: MMU_CIRCpedia_25104, circAtlas: mmu-Aifm2_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTCCCAAGTGCCAAGTTCAAGATGGGGTCCCAGGTCTCGGTGGATACAGGAGCCGTGCACGTGGTGATCGTGGGCGGGGGCTTCGGAGGGATAGCGGCTGCCAGCCAGCTGCAGGCGCTGAATGTCCCCTTCATGCTGGTGGATATGAAGGACTCCTTCCACCACAATGTGGCAGCCCTCCGGGCCTCCGTGGAGAGCGGGTTCGCCAAAAAGACATTCATTTCGTACTCTGCGACCTTCAAGGACAACTTCCGCCAGGGCAAAGTGATTGGCATAGACTTGAAGAACCGGATGGTGTTGCTACAGGGTGGCGAGGCCTTGCCCTTCTCACATCTTATCCTGGCCACAGGCAGCACCGGACCCTTCCCTGGCAAGTTTAACGAGGTGTCCTGCCAGCAGGCAGCCATCCAGGCCTATGAGGACATGGTGAAGCAGATCCAGCGCTCACAATTCATCGTGGTGGTGGGAGGCGGCTCTGCAGGAGTAGAGATGGCAGCAGAGATTAAAACCGAGTACCCTGAGAAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCGCTCACAATTCATCG
59.97
GCTCCTGTATCCACCGAGAC
59.61
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCGCTCACAATTCATCGTGG
60.25
GCTCCTGTATCCACCGAGAC
59.61
141
PCR template sequence:
GAAGCAGATCCAGCGCTCACAATTCATCGTGGTGGTGGGAGGCGGCTCTGCAGGAGTAGAGATGGCAGCAGAGATTAAAACCGAGTACCCTGAGAAGGAGCTCCCAAGTGCCAAGTTCAAGATGGGGTCCCAGGTCTCGGTGGATACAGGAGCCGTGCACGTGGTGATCGTGGGCGGGGGCTTCGGAGGGATAGCGGCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-181a-5p(1), mmu-miR-205-5p(1), mmu-miR-10b-5p(1), mmu-miR-10a-5p(1), mmu-miR-181b-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTGAGAAGGAGCTCCCAAGTGCCA
siRNA sets
CACTTGGGAGCTCCTTCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAIFM2_528_ORF_1
1.3096
0.529482499
0.998888934
1035
ORF sequence:
ATGGGGTCCCAGGTCTCGGTGGATACAGGAGCCGTGCACGTGGTGATCGTGGGCGGGGGCTTCGGAGGGATAGCGGCTGCCAGCCAGCTGCAGGCGCTGAATGTCCCCTTCATGCTGGTGGATATGAAGGACTCCTTCCACCACAATGTGGCAGCCCTCCGGGCCTCCGTGGAGAGCGGGTTCGCCAAAAAGACATTCATTTCGTACTCTGCGACCTTCAAGGACAACTTCCGCCAGGGCAAAGTGATTGGCATAGACTTGAAGAACCGGATGGTGTTGCTACAGGGTGGCGAGGCCTTGCCCTTCTCACATCTTATCCTGGCCACAGGCAGCACCGGACCCTTCCCTGGCAAGTTTAACGAGGTGTCCTGCCAGCAGGCAGCCATCCAGGCCTATGAGGACATGGTGAAGCAGATCCAGCGCTCACAATTCATCGTGGTGGTGGGAGGCGGCTCTGCAGGAGTAGAGATGGCAGCAGAGATTAAAACCGAGTACCCTGAGAAGGAGCTCCCAAGTGCCAAGTTCAAGATGGGGTCCCAGGTCTCGGTGGATACAGGAGCCGTGCACGTGGTGATCGTGGGCGGGGGCTTCGGAGGGATAGCGGCTGCCAGCCAGCTGCAGGCGCTGAATGTCCCCTTCATGCTGGTGGATATGAAGGACTCCTTCCACCACAATGTGGCAGCCCTCCGGGCCTCCGTGGAGAGCGGGTTCGCCAAAAAGACATTCATTTCGTACTCTGCGACCTTCAAGGACAACTTCCGCCAGGGCAAAGTGATTGGCATAGACTTGAAGAACCGGATGGTGTTGCTACAGGGTGGCGAGGCCTTGCCCTTCTCACATCTTATCCTGGCCACAGGCAGCACCGGACCCTTCCCTGGCAAGTTTAACGAGGTGTCCTGCCAGCAGGCAGCCATCCAGGCCTATGAGGACATGGTGAAGCAGATCCAGCGCTCACAATTCATCGTGGTGGTGGGAGGCGGCTCTGCAGGAGTAGAGATGGCAGCAGAGATTAAAACCGAGTACCCTGAGAAGGAG
Peptide sequence:
MGSQVSVDTGAVHVVIVGGGFGGIAAASQLQALNVPFMLVDMKDSFHHNVAALRASVESGFAKKTFISYSATFKDNFRQGKVIGIDLKNRMVLLQGGEALPFSHLILATGSTGPFPGKFNEVSCQQAAIQAYEDMVKQIQRSQFIVVVGGGSAGVEMAAEIKTEYPEKELPSAKFKMGSQVSVDTGAVHVVIVGGGFGGIAAASQLQALNVPFMLVDMKDSFHHNVAALRASVESGFAKKTFISYSATFKDNFRQGKVIGIDLKNRMVLLQGGEALPFSHLILATGSTGPFPGKFNEVSCQQAAIQAYEDMVKQIQRSQFIVVVGGGSAGVEMAAEIKTEYPEKE
IRESfinder result
IRESfinder score
0.304219923
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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