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mmu_circIqce_429
Basic information of circular RNA
PanCircBase ID:
mmu_circIqce_429
mm39_Chr. Position ID:
chr5|140677354|140685487|-
Gene name:
Iqce
Transcript:
ENSMUST00000041783.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
6,5,4,3,2
Exon/intron offsets:
0,1194,1815,5408,8085
Genomic length:
8133
Exon/intron sizes in nt:
71,135,129,46,48
Flanking exon/introns:
chr5:140675824-140677354|chr5:140685487-140687936
Splice length:
429
Other database IDs:
circAtlas: mmu-Iqce_0001
circAtlas: hsa-IQCE_0001, CIRCpedia: HSA_CIRCpedia_57746
Human Ortholog IDs:
Mature spliced Sequence:
GGAGATGACAGTCTGTCTGCTATTACCTTTGAATCTGACATTGAGTCGAAAACAAAAAGGAAAAGTTTCCACAAACCTCCTTCCACATCACCAAAGTCGCCCTACTACTCCAAACCCAGAAAAGTGACCTCCTGGCGATCTCTGAAGACGGCAGGGAGCATGCCTCTGAGTAGCAGAATGTCCTTGACCCCACAGAAGCTGTGGCTGGGATCCTCGAAACAGGGTAGTGTGGCCCAACCCCCGAGCCCCACGCTTACCTCGGAGCACGCGTGGACCCACCCCCCCAGCTGCACTCCCGACTACCTGACAGAAGCCGTGAGAGCGAAGAGGGCAGACCTCAGGCGTTCTGGCAGCCATGGTCACGTCTCTGGGACTTCCGTCTACAGAGAGAAGGAGGACATGTACGACGAGATCATCGAGTTGAAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGTCACGTCTCTGGGAC
60.11
GCGACTTTGGTGATGTGGAAG
59.8
175
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGGTCACGTCTCTGGGAC
60.11
TGTGGAAGGAGGTTTGTGGA
58.78
162
PCR template sequence:
GGCAGACCTCAGGCGTTCTGGCAGCCATGGTCACGTCTCTGGGACTTCCGTCTACAGAGAGAAGGAGGACATGTACGACGAGATCATCGAGTTGAAGAAGGGAGATGACAGTCTGTCTGCTATTACCTTTGAATCTGACATTGAGTCGAAAACAAAAAGGAAAAGTTTCCACAAACCTCCTTCCACATCACCAAAGTCGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CGAGTTGAAGAAGGGAGATGACAGTC
siRNA sets
ATCTCCCTTCTTCAACTCG, TCATCTCCCTTCTTCAACT, ACTGTCATCTCCCTTCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCIQCE_429_ORF_1
0.9133
0.294876775
0.936139445
699
ORF sequence:
ATGCCTCTGAGTAGCAGAATGTCCTTGACCCCACAGAAGCTGTGGCTGGGATCCTCGAAACAGGGTAGTGTGGCCCAACCCCCGAGCCCCACGCTTACCTCGGAGCACGCGTGGACCCACCCCCCCAGCTGCACTCCCGACTACCTGACAGAAGCCGTGAGAGCGAAGAGGGCAGACCTCAGGCGTTCTGGCAGCCATGGTCACGTCTCTGGGACTTCCGTCTACAGAGAGAAGGAGGACATGTACGACGAGATCATCGAGTTGAAGAAGGGAGATGACAGTCTGTCTGCTATTACCTTTGAATCTGACATTGAGTCGAAAACAAAAAGGAAAAGTTTCCACAAACCTCCTTCCACATCACCAAAGTCGCCCTACTACTCCAAACCCAGAAAAGTGACCTCCTGGCGATCTCTGAAGACGGCAGGGAGCATGCCTCTGAGTAGCAGAATGTCCTTGACCCCACAGAAGCTGTGGCTGGGATCCTCGAAACAGGGTAGTGTGGCCCAACCCCCGAGCCCCACGCTTACCTCGGAGCACGCGTGGACCCACCCCCCCAGCTGCACTCCCGACTACCTGACAGAAGCCGTGAGAGCGAAGAGGGCAGACCTCAGGCGTTCTGGCAGCCATGGTCACGTCTCTGGGACTTCCGTCTACAGAGAGAAGGAGGACATGTACGACGAGATCATCGAGTTGAAGAAG
Peptide sequence:
MPLSSRMSLTPQKLWLGSSKQGSVAQPPSPTLTSEHAWTHPPSCTPDYLTEAVRAKRADLRRSGSHGHVSGTSVYREKEDMYDEIIELKKGDDSLSAITFESDIESKTKRKSFHKPPSTSPKSPYYSKPRKVTSWRSLKTAGSMPLSSRMSLTPQKLWLGSSKQGSVAQPPSPTLTSEHAWTHPPSCTPDYLTEAVRAKRADLRRSGSHGHVSGTSVYREKEDMYDEIIELKK
IRESfinder result
IRESfinder score
0.485194394
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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