top of page

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

bottom of page