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mmu_circNf2_1338
Basic information of circular RNA
PanCircBase ID:
mmu_circNf2_1338
mm39_Chr. Position ID:
chr11|4730577|4758325|-
Gene name:
Nf2
Transcript:
ENSMUST00000056290.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
16,15,14,13,12,11,10,9,8,7,6,5
Exon/intron offsets:
0,1609,3858,6866,9087,10513,13834,14265,19283,23100,25676,27679
Genomic length:
27748
Exon/intron sizes in nt:
45,166,128,106,218,123,114,75,135,76,83,69
Flanking exon/introns:
chr11:4718273-4730577|chr11:4758325-4766081
Splice length:
1338
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TATGGCGACTATGACCCCTCTGTGCACAAGCGGGGATTTTTAGCCCAAGAGGAATTGCTCCCGAAAAGGGTGATAAATCTCTATCAGATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGGAGTATTTGAAGATAGCTCAGGACCTGGAGATGTATGGTGTGAACTACTTTACAATCCGGAATAAAAAGGGCACAGAGTTGCTGCTTGGAGTGGATGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAGTTTACTATTAAACCACTGGATAAGAAAATTGATGTCTTCAAATTTAACTCCTCAAAGCTTCGTGTTAATAAGCTGATTCTTCAGCTATGTATTGGGAACCATGACCTATTTATGAGGCGACGGAAAGCTGACTCTTTAGAAGTTCAGCAGATGAAAGCCCAGGCCAGGGAAGAGAAGGCTAGAAAGCAGATGGAAAGGCAGCGGCTGGCTCGAGAGAAGCAGATGCGGGAGGAGGCCGAGCGTACAAGAGATGAGTTAGAGAGGAGGCTCCTGCAGATGAAAGAAGAAGCAACGATGGCCAATGAAGCTCTGATGCGCTCTGAGGAGACAGCTGATCTGTTGGCTGAAAAGGCTCAGATCACAGAGGAGGAGGCCAAGCTTTTGGCACAAAAGGCTGCAGAGGCTGAGCAAGAGATGCAGCGAATCAAGGCCACGGCCATTCGGACAGAGGAGGAGAAGCGCCTGATGGAGCAGAAGGTGCTGGAGGCTGAAGTGCTGGCATTGAAGATGGCTGAGGAGTCAGAGAGGAGGGCCAAGGAGGCTGATCAGTTAAAGCAAGACTTGCAAGAAGCCAGAGAAGCAGAGCGAAGAGCCAAGCAGAAGCTCTTAGAAATCGCCACCAAGCCCACCTATCCACCCATGAACCCAATTCCACCACCACTGCCTCCTGACATACCGAGCTTCGACATTATTGCTGACAGCTTGTCATTTGACTTCAAGGATACGGACATGAAGCGACTTTCCATGGAGATAGAGAAAGAAAAAGTGGAGTACATGGAGAAGAGCAAGCACCTGCAGGAGCAGCTCAACGAGCTCAAGACGGAGATCGAGGCCTTGAAACTCAAAGAGCGGGAGACGGCCTTGGACGTCCTACACAGCGAGAGCTCAGACAGAGGCGGCCCCAGCAGCAAGCATAATACCATTAAAAAGCCTCAAGCCCAAGGCAGAAGACCTATCTGCATTTGAGTCCTCAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGCTCAGACAGAGGCG
59.57
GGAGCAATTCCTCTTGGGCT
60.03
157
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGAGAGCTCAGACAGAGGC
59.57
GGAGCAATTCCTCTTGGGCT
60.03
158
PCR template sequence:
CAGCGAGAGCTCAGACAGAGGCGGCCCCAGCAGCAAGCATAATACCATTAAAAAGCCTCAAGCCCAAGGCAGAAGACCTATCTGCATTTGAGTCCTCAAATATGGCGACTATGACCCCTCTGTGCACAAGCGGGGATTTTTAGCCCAAGAGGAATTGCTCCCGAAAAGGGTGATAAATCTCTATCAGATGACTCCGGAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-207(2), mmu-miR-1904(2), mmu-miR-322-5p(1), mmu-miR-335-5p(1), mmu-miR-328-3p(1), mmu-miR-136-5p(1), mmu-miR-676-3p(1), mmu-miR-362-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTGAGTCCTCAAATATGGCGACTATG
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
0.269392657
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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