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mmu_circNf2_483
Basic information of circular RNA
PanCircBase ID:
mmu_circNf2_483
mm39_Chr. Position ID:
chr11|4744411|4756336|-
Gene name:
Nf2
Transcript:
ENSMUST00000109910.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
10,9,8,7,6
Exon/intron offsets:
0,431,5449,9266,11842
Genomic length:
11925
Exon/intron sizes in nt:
114,75,135,76,83
Flanking exon/introns:
chr11:4741213-4744411|chr11:4756336-4758256
Splice length:
483
Other database IDs:
circAtlas: mmu-Nf2_0032
Human Ortholog IDs:
Mature spliced Sequence:
GTGATAAATCTCTATCAGATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGGAGTATTTGAAGATAGCTCAGGACCTGGAGATGTATGGTGTGAACTACTTTACAATCCGGAATAAAAAGGGCACAGAGTTGCTGCTTGGAGTGGATGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAGTTTACTATTAAACCACTGGATAAGAAAATTGATGTCTTCAAATTTAACTCCTCAAAGCTTCGTGTTAATAAGCTGATTCTTCAGCTATGTATTGGGAACCATGACCTATTTATGAGGCGACGGAAAGCTGACTCTTTAGAAGTTCAGCAGATGAAAGCCCAGGCCAGGGAAGAGAAGGCTAGAAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAGCAGATGAAAGCCCAGG
60.03
TTCAGCTTCATCCCTGGCTC
59.75
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATGAGGCGACGGAAAGCTG
60.18
CTCCGCATACCAAGCCGTAA
60.18
145
PCR template sequence:
TATTGGGAACCATGACCTATTTATGAGGCGACGGAAAGCTGACTCTTTAGAAGTTCAGCAGATGAAAGCCCAGGCCAGGGAAGAGAAGGCTAGAAAGCAGGTGATAAATCTCTATCAGATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGG
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-322-5p(1), mmu-miR-335-5p(1), mmu-miR-136-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCTAGAAAGCAGGTGATAAATCTCT
siRNA sets
TTATCACCTGCTTTCTAGC, ATTTATCACCTGCTTTCTA, TTTATCACCTGCTTTCTAG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF2_483_ORF_1
1.1853
0.28032257
0.992794993
948
ORF sequence:
ATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGGAGTATTTGAAGATAGCTCAGGACCTGGAGATGTATGGTGTGAACTACTTTACAATCCGGAATAAAAAGGGCACAGAGTTGCTGCTTGGAGTGGATGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAGTTTACTATTAAACCACTGGATAAGAAAATTGATGTCTTCAAATTTAACTCCTCAAAGCTTCGTGTTAATAAGCTGATTCTTCAGCTATGTATTGGGAACCATGACCTATTTATGAGGCGACGGAAAGCTGACTCTTTAGAAGTTCAGCAGATGAAAGCCCAGGCCAGGGAAGAGAAGGCTAGAAAGCAGGTGATAAATCTCTATCAGATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGGAGTATTTGAAGATAGCTCAGGACCTGGAGATGTATGGTGTGAACTACTTTACAATCCGGAATAAAAAGGGCACAGAGTTGCTGCTTGGAGTGGATGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAGTTTACTATTAAACCACTGGATAAGAAAATTGATGTCTTCAAATTTAACTCCTCAAAGCTTCGTGTTAATAAGCTGATTCTTCAGCTATGTATTGGGAACCATGACCTATTTATGAGGCGACGGAAAGCTGACTCTTTAGAAGTTCAGCAGATGAAAGCCCAGGCCAGGGAAGAGAAGGCTAGAAAGCAG
Peptide sequence:
MTPEMWEERITAWYAEHRGRARDEAEMEYLKIAQDLEMYGVNYFTIRNKKGTELLLGVDALGLHIYDPENRLTPKISFPWNEIRNISYSDKEFTIKPLDKKIDVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQVINLYQMTPEMWEERITAWYAEHRGRARDEAEMEYLKIAQDLEMYGVNYFTIRNKKGTELLLGVDALGLHIYDPENRLTPKISFPWNEIRNISYSDKEFTIKPLDKKIDVFKFNSSKLRVNKLILQLCIGNHDLFMRRRKADSLEVQQMKAQAREEKARKQ
IRESfinder result
IRESfinder score
0.414508176
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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