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mmu_circApp_307
Basic information of circular RNA
PanCircBase ID:
mmu_circApp_307
mm39_Chr. Position ID:
chr16|84876727|84879776|-
Gene name:
App
Transcript:
ENSMUST00000227723.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,2936
Genomic length:
3049
Exon/intron sizes in nt:
194,113
Flanking exon/introns:
chr16:84853414-84876727|chr16:84879776-84900093
Splice length:
307
Other database IDs:
circBase: mmu_circ_0006426, CIRCpedia: MMU_CIRCpedia_31977, circAtlas: mmu-App_0002
circBase: hsa_circ_0003038, circAtlas: hsa-APP_0001, CIRCpedia: HSA_CIRCpedia_35131
Human Ortholog IDs:
Mature spliced Sequence:
TTGGTGAGTTTGTGAGCGACGCCCTTCTCGTGCCCGACAAGTGCAAGTTCCTACACCAGGAGCGGATGGATGTTTGTGAGACCCATCTTCACTGGCACACCGTCGCCAAAGAGACATGCAGCGAGAAGAGCACTAACTTGCACGACTATGGCATGCTGCTGCCCTGCGGCATCGACAAGTTCCGAGGGGTAGAGTTTGTATGCTGCCCGTTGGCCGAGGAAAGCGACAGCGTGGATTCTGCGGATGCAGAGGAGGATGACTCTGATGTCTGGTGGGGTGGAGCGGACACAGACTACGCTGATGGCGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGATGCAGAGGAGGATGAC
59.97
TGTGCCAGTGAAGATGGGTC
59.96
166
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGGATGCAGAGGAGGATGAC
59.97
AAACATCCATCCGCTCCTGG
60.11
142
PCR template sequence:
CGTTGGCCGAGGAAAGCGACAGCGTGGATTCTGCGGATGCAGAGGAGGATGACTCTGATGTCTGGTGGGGTGGAGCGGACACAGACTACGCTGATGGCGGTTGGTGAGTTTGTGAGCGACGCCCTTCTCGTGCCCGACAAGTGCAAGTTCCTACACCAGGAGCGGATGGATGTTTGTGAGACCCATCTTCACTGGCACAC
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-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-181b-5p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGCTGATGGCGGTTGGTGAGTTTGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAPP_307_ORF_1
1.0461
0.449596725
0.766548033
369
ORF sequence:
ATGCAGAGGAGGATGACTCTGATGTCTGGTGGGGTGGAGCGGACACAGACTACGCTGATGGCGGTTGGTGAGTTTGTGAGCGACGCCCTTCTCGTGCCCGACAAGTGCAAGTTCCTACACCAGGAGCGGATGGATGTTTGTGAGACCCATCTTCACTGGCACACCGTCGCCAAAGAGACATGCAGCGAGAAGAGCACTAACTTGCACGACTATGGCATGCTGCTGCCCTGCGGCATCGACAAGTTCCGAGGGGTAGAGTTTGTATGCTGCCCGTTGGCCGAGGAAAGCGACAGCGTGGATTCTGCGGATGCAGAGGAGGATGACTCTGATGTCTGGTGGGGTGGAGCGGACACAGACTACGCTGATGGC
Peptide sequence:
MQRRMTLMSGGVERTQTTLMAVGEFVSDALLVPDKCKFLHQERMDVCETHLHWHTVAKETCSEKSTNLHDYGMLLPCGIDKFRGVEFVCCPLAEESDSVDSADAEEDDSDVWWGGADTDYADG
IRESfinder result
IRESfinder score
0.082873313
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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