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mmu_circFmnl2_619
Basic information of circular RNA
PanCircBase ID:
mmu_circFmnl2_619
mm39_Chr. Position ID:
chr2|52944465|52991548|+
Gene name:
Fmnl2
Transcript:
ENSMUST00000155586.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
6,7,8,9,10,11
Exon/intron offsets:
0,14048,17756,19186,42817,46972
Genomic length:
47083
Exon/intron sizes in nt:
15,31,09,77,94,75,111
Flanking exon/introns:
chr2:52941295-52944465|chr2:52991548-52993668
Splice length:
619
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTTTGACTTTGAAAGTGTGGAAAGTACCATGGAGAGTACGGTGGACAAATCAAAGCCCTGGAGCAGGTCCATCGAGGACCTGCACAGAGGGAGCAACCTGCCCTCACCTGTGGGCAACAGTGTGTCCCGCTCTGGAAGACATTCTGCACTTCGATATAATACTTTGCCAAGCAGAAGAACCCTGAAAAATTCAAGATTAGTGAGTAAGAAGGATGATGTTCACGTTTGTATCATGTGTTTACGAGCCATCATGAATTACCAGTATGGCTTCAACATGGTCATGTCTCATCCACACGCCGTCAATGAGATTGCACTAAGTCTGAACAACAAAAATCCCAGAACAAAAGCTCTTGTCTTGGAGCTGTTGGCAGCCGTTTGTCTTGTCAGAGGCGGGCATGAAATAATTTTATCAGCTTTTGATAACTTCAAGGAGGTCTGCGGAGAAAAGCAGCGTTTTGAGAAGCTGATGGAACATTTCAGGAATGAAGATAATAACATAGATTTTATGGTGGCCTCTATGCAGTTTATTAACATTGTAGTCCATTCAGTAGAAGACATGAACTTCAGAGTTCATCTACAATATGAATTCACCAAATTAGGCCTGGATGAATACTTGGAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCCATTCAGTAGAAGACATGAACT
59.79
CTCTGTGCAGGTCCTCGATG
60.18
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCCATTCAGTAGAAGACATGA
56.73
CTCTGTGCAGGTCCTCGATG
60.18
171
PCR template sequence:
GCAGTTTATTAACATTGTAGTCCATTCAGTAGAAGACATGAACTTCAGAGTTCATCTACAATATGAATTCACCAAATTAGGCCTGGATGAATACTTGGATTTTTGACTTTGAAAGTGTGGAAAGTACCATGGAGAGTACGGTGGACAAATCAAAGCCCTGGAGCAGGTCCATCGAGGACCTGCACAGAGGGAGCAACCTG
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-130a-3p(1), mmu-miR-203-3p(1), mmu-miR-433-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGAATACTTGGATTTTTGACTTTGAA
siRNA sets
AAAGTCAAAAATCCAAGTA, CAAAGTCAAAAATCCAAGT, TTCAAAGTCAAAAATCCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCFMNL2_619_ORF_1
0.9591
0.138522618
0.838326185
633
ORF sequence:
ATGAATACTTGGATTTTTGACTTTGAAAGTGTGGAAAGTACCATGGAGAGTACGGTGGACAAATCAAAGCCCTGGAGCAGGTCCATCGAGGACCTGCACAGAGGGAGCAACCTGCCCTCACCTGTGGGCAACAGTGTGTCCCGCTCTGGAAGACATTCTGCACTTCGATATAATACTTTGCCAAGCAGAAGAACCCTGAAAAATTCAAGATTAGTGAGTAAGAAGGATGATGTTCACGTTTGTATCATGTGTTTACGAGCCATCATGAATTACCAGTATGGCTTCAACATGGTCATGTCTCATCCACACGCCGTCAATGAGATTGCACTAAGTCTGAACAACAAAAATCCCAGAACAAAAGCTCTTGTCTTGGAGCTGTTGGCAGCCGTTTGTCTTGTCAGAGGCGGGCATGAAATAATTTTATCAGCTTTTGATAACTTCAAGGAGGTCTGCGGAGAAAAGCAGCGTTTTGAGAAGCTGATGGAACATTTCAGGAATGAAGATAATAACATAGATTTTATGGTGGCCTCTATGCAGTTTATTAACATTGTAGTCCATTCAGTAGAAGACATGAACTTCAGAGTTCATCTACAATATGAATTCACCAAATTAGGCCTGGATGAATACTTGGAT
Peptide sequence:
MNTWIFDFESVESTMESTVDKSKPWSRSIEDLHRGSNLPSPVGNSVSRSGRHSALRYNTLPSRRTLKNSRLVSKKDDVHVCIMCLRAIMNYQYGFNMVMSHPHAVNEIALSLNNKNPRTKALVLELLAAVCLVRGGHEIILSAFDNFKEVCGEKQRFEKLMEHFRNEDNNIDFMVASMQFINIVVHSVEDMNFRVHLQYEFTKLGLDEYLD
IRESfinder result
IRESfinder score
0.653702401
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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