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mmu_circIlrun_329
Basic information of circular RNA
PanCircBase ID:
mmu_circIlrun_329
mm39_Chr. Position ID:
chr17|27986884|27987213|-
Gene name:
Ilrun
Transcript:
ENSMUST00000114863.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
4
Exon/intron offsets:
0
Genomic length:
329
Exon/intron sizes in nt:
329
Flanking exon/introns:
chr17:27972969-27986884|chr17:27987213-28005044
Splice length:
329
Other database IDs:
circBase: hsa_circ_0006757, circAtlas: hsa-C6orf106_0003, CIRCpedia: HSA_CIRCpedia_54794
Human Ortholog IDs:
Mature spliced Sequence:
ATGTCATCTGGGTGATTCTCAGTGTGGAGGTGGGTGGACTTTTAGGAGTAACGCAGCAGCTGTCATCTTTTGAAACGGAATTCAACACACAGCCACATCGCAAGGTAGAAGGAAACTTCAACCCGTTTGCCTCTCCCCAAAAGAACCGACAATCAGATGAAAACAACCTAACAGACCCTGGGGGTTCCGAGTTCGACTCGATCAGCAAAAATACATGGGCTCCTGTTCCTGAGCAAAGCGAGCAAGATCAGGATAGACTGTCACAGAGCTCTGTAAATCTGTCCCCCAGCAGTCCCGCAAACAACTTATCAGTAGTGACTTACAGTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAAGCGAGCAAGATCAGG
59.9
ATGACAGCTGCTGCGTTACT
60.04
163
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAAAGCGAGCAAGATCAGG
59.9
CAGCTGCTGCGTTACTCCTA
59.83
159
PCR template sequence:
TGAGCAAAGCGAGCAAGATCAGGATAGACTGTCACAGAGCTCTGTAAATCTGTCCCCCAGCAGTCCCGCAAACAACTTATCAGTAGTGACTTACAGTAAGATGTCATCTGGGTGATTCTCAGTGTGGAGGTGGGTGGACTTTTAGGAGTAACGCAGCAGCTGTCATCTTTTGAAACGGAATTCAACACACAGCCACATCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-382-5p(1), mmu-miR-224-5p(1), mmu-miR-129-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
GACTTACAGTAAGATGTCATCTGGGT
siRNA sets
TGACATCTTACTGTAAGTC, ATGACATCTTACTGTAAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.558638582
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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