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mmu_circFtsj1_419
Basic information of circular RNA
PanCircBase ID:
mmu_circFtsj1_419
mm39_Chr. Position ID:
chrX|8111298|8112658|-
Gene name:
Ftsj1
Transcript:
ENSMUST00000033513.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
12,11,10,9
Exon/intron offsets:
0,224,492,1276
Genomic length:
1360
Exon/intron sizes in nt:
42,189,104,84
Flanking exon/introns:
chrX:8107069-8111298|chrX:8112658-8112770
Splice length:
419
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AGGCCTTTGCTGTGTGTCAGGGTTATGACCCTCCTGAGGGCTTCATTCCAGACCTGACCAGACCCCTGCTGAACCACTCATATGATACAGATTTCAACCAGTTGGATGGTCCCACCCGTGTTATTGTGCCCTTTGTGGCCTGTGGGGACCTCAGCGCCTACGATTCGGACCGCACTTACTCTCTGGATCTAGACGGTGGCTCTGAGTACAAATATACTCCACCCACACAGCCCCCCATCGCACCCCCATACCAAGAGGCCTGCAGGTTGAAGAAGAATGGACAGCTGGCCAAGGAACTCCTCCCCCAAGAATGCTCCATCAACAGTGTGGACAAGTTGCCCCAGCCTCTGGCTATCCATACCCTGCTAGACCCCAAGGTGGAAGACAATGAAATTCATTGTTGACCTTAACACATTAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATACCCTGCTAGACCCC
60.11
TATGAGTGGTTCAGCAGGGG
59.09
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCCATACCCTGCTAGACCCC
60.11
GAGTGGTTCAGCAGGGGTC
60
144
PCR template sequence:
CAACAGTGTGGACAAGTTGCCCCAGCCTCTGGCTATCCATACCCTGCTAGACCCCAAGGTGGAAGACAATGAAATTCATTGTTGACCTTAACACATTAAGAGGCCTTTGCTGTGTGTCAGGGTTATGACCCTCCTGAGGGCTTCATTCCAGACCTGACCAGACCCCTGCTGAACCACTCATATGATACAGATTTCAACCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-342-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTAACACATTAAGAGGCCTTTGCTGT
siRNA sets
CAAAGGCCTCTTAATGTGT,AAAGGCCTCTTAATGTGTT
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
0.529149433
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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