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mmu_ciFoxj2_379
Basic information of circular RNA
PanCircBase ID:
mmu_ciFoxj2_379
mm39_Chr. Position ID:
chr6|122810260|122810639|+
Gene name:
Foxj2
Transcript:
ENSMUST00000003238.14
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
5
Exon/intron offsets:
0
Genomic length:
379
Exon/intron sizes in nt:
379
Flanking exon/introns:
chr6:122810260-122810639
Splice length:
379
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGAAGCTGAGATGACAAGCATAGGGTAATTGGACGGATGGTTCAGTGGGTTTGGATATCACGCCGTTCACTTGCATATTGAGTACCTTGTCATGTGCTAGGCAGATAGATTGGGAAAGAAGGAAAAAGCAAAGGAGGAAAACCCAGCCAGAAGGAAGGAGGTGCAGAGAGGCATGGAGGTGCACTAGGGAAGGGCTTGTAGAAAAGAAATGGAGAGTGATGTAGAAGCCAGGTTCAAGATGGCCAATGAGAGCGGGAAGAGCCGGTGATGCTGTGCCATTGGCCAGCTGGAGACGGTGAAGAGGACAGACCTGACTGACCCTGGTGGGTTATGCTGCTTAGAAGGCTTAGGTCACCGTTCTTACCTGTCTTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCTGGAGACGGTGAAGAG
60.11
CCACTGAACCATCCGTCCAA
59.96
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCTGGAGACGGTGAAGAG
60.11
AACCCACTGAACCATCCGTC
59.96
147
PCR template sequence:
CATTGGCCAGCTGGAGACGGTGAAGAGGACAGACCTGACTGACCCTGGTGGGTTATGCTGCTTAGAAGGCTTAGGTCACCGTTCTTACCTGTCTTTGCAGGTAGGAAGCTGAGATGACAAGCATAGGGTAATTGGACGGATGGTTCAGTGGGTTTGGATATCACGCCGTTCACTTGCATATTGAGTACCTTGTCATGTGC
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-103-3p(1), mmu-miR-136-5p(1), mmu-miR-215-5p(1), mmu-miR-107-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGTCTTTGCAGGTAGGAAGCTGAG
siRNA sets
NA
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
0.275539045
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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