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mmu_circNf2_696
Basic information of circular RNA
PanCircBase ID:
mmu_circNf2_696
mm39_Chr. Position ID:
chr11|4749860|4770493|-
Gene name:
Nf2
Transcript:
ENSMUST00000109910.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
8,7,6,5,4,3,2
Exon/intron offsets:
0,3817,6393,8396,16221,18644,20507
Genomic length:
20633
Exon/intron sizes in nt:
135,76,83,69,84,123,126
Flanking exon/introns:
chr11:4744917-4749860|chr11:4770493-4798871
Splice length:
696
Other database IDs:
circBase: mmu_circ_0003054, CIRCpedia: MMU_CIRCpedia_21249, circAtlas: mmu-Nf2_0009
circAtlas: hsa-NF2_0019, CIRCpedia: HSA_CIRCpedia_90383
Human Ortholog IDs:
Mature spliced Sequence:
ATGAAATGGAAGGGGAAGGACCTGTTTGATTTGGTGTGCCGGACACTGGGGCTTCGGGAAACCTGGTTCTTTGGACTGCAGTATACAATCAAGGACACGGTGGCCTGGCTCAAAATGGACAAGAAGGTGTTGGATCATGATGTTTCGAAGGAAGAACCAGTTACCTTTCACTTCCTGGCCAAATTTTATCCTGAAAATGCTGAGGAGGAGCTAGTTCAAGAGATCACGCAACACTTATTTTTCTTACAGGTGAAGAAGCAGATTTTGGATGAAAAGGTCTACTGCCCTCCCGAGGCGTCCGTGCTCTTGGCGTCATATGCTGTCCAGGCCAAGTATGGCGACTATGACCCCTCTGTGCACAAGCGGGGATTTTTAGCCCAAGAGGAATTGCTCCCGAAAAGGGTGATAAATCTCTATCAGATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGGAGTATTTGAAGATAGCTCAGGACCTGGAGATGTATGGTGTGAACTACTTTACAATCCGGAATAAAAAGGGCACAGAGTTGCTGCTTGGAGTGGATGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCCCAAGATCTCCTTCCC
60.62
TGCAGTCCAAAGAACCAGGT
59.45
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACCCCCAAGATCTCCTTCC
59.16
TGCAGTCCAAAGAACCAGGT
59.45
141
PCR template sequence:
TGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAGATGAAATGGAAGGGGAAGGACCTGTTTGATTTGGTGTGCCGGACACTGGGGCTTCGGGAAACCTGGTTCTTTGGACTGCAGTATACAATCAAGGACACGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(2), mmu-miR-199a-5p(1), mmu-miR-322-5p(1), mmu-miR-136-5p(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGCGACAAGGAGATGAAATGGAAGG
siRNA sets
CATTTCATCTCCTTGTCGC, TTCCATTTCATCTCCTTGT, TTTCATCTCCTTGTCGCTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNF2_696_ORF_1
1.0747
0.323499065
0.999693714
1392
ORF sequence:
ATGAAATGGAAGGGGAAGGACCTGTTTGATTTGGTGTGCCGGACACTGGGGCTTCGGGAAACCTGGTTCTTTGGACTGCAGTATACAATCAAGGACACGGTGGCCTGGCTCAAAATGGACAAGAAGGTGTTGGATCATGATGTTTCGAAGGAAGAACCAGTTACCTTTCACTTCCTGGCCAAATTTTATCCTGAAAATGCTGAGGAGGAGCTAGTTCAAGAGATCACGCAACACTTATTTTTCTTACAGGTGAAGAAGCAGATTTTGGATGAAAAGGTCTACTGCCCTCCCGAGGCGTCCGTGCTCTTGGCGTCATATGCTGTCCAGGCCAAGTATGGCGACTATGACCCCTCTGTGCACAAGCGGGGATTTTTAGCCCAAGAGGAATTGCTCCCGAAAAGGGTGATAAATCTCTATCAGATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGGAGTATTTGAAGATAGCTCAGGACCTGGAGATGTATGGTGTGAACTACTTTACAATCCGGAATAAAAAGGGCACAGAGTTGCTGCTTGGAGTGGATGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAGATGAAATGGAAGGGGAAGGACCTGTTTGATTTGGTGTGCCGGACACTGGGGCTTCGGGAAACCTGGTTCTTTGGACTGCAGTATACAATCAAGGACACGGTGGCCTGGCTCAAAATGGACAAGAAGGTGTTGGATCATGATGTTTCGAAGGAAGAACCAGTTACCTTTCACTTCCTGGCCAAATTTTATCCTGAAAATGCTGAGGAGGAGCTAGTTCAAGAGATCACGCAACACTTATTTTTCTTACAGGTGAAGAAGCAGATTTTGGATGAAAAGGTCTACTGCCCTCCCGAGGCGTCCGTGCTCTTGGCGTCATATGCTGTCCAGGCCAAGTATGGCGACTATGACCCCTCTGTGCACAAGCGGGGATTTTTAGCCCAAGAGGAATTGCTCCCGAAAAGGGTGATAAATCTCTATCAGATGACTCCGGAAATGTGGGAGGAGAGAATTACGGCTTGGTATGCGGAGCACCGGGGCAGAGCCAGGGATGAAGCTGAAATGGAGTATTTGAAGATAGCTCAGGACCTGGAGATGTATGGTGTGAACTACTTTACAATCCGGAATAAAAAGGGCACAGAGTTGCTGCTTGGAGTGGATGCTCTTGGGCTTCATATCTATGACCCTGAGAACAGGCTGACCCCCAAGATCTCCTTCCCATGGAATGAAATCCGAAACATCTCCTACAGCGACAAGGAG
Peptide sequence:
MKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDHDVSKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKVYCPPEASVLLASYAVQAKYGDYDPSVHKRGFLAQEELLPKRVINLYQMTPEMWEERITAWYAEHRGRARDEAEMEYLKIAQDLEMYGVNYFTIRNKKGTELLLGVDALGLHIYDPENRLTPKISFPWNEIRNISYSDKEMKWKGKDLFDLVCRTLGLRETWFFGLQYTIKDTVAWLKMDKKVLDHDVSKEEPVTFHFLAKFYPENAEEELVQEITQHLFFLQVKKQILDEKVYCPPEASVLLASYAVQAKYGDYDPSVHKRGFLAQEELLPKRVINLYQMTPEMWEERITAWYAEHRGRARDEAEMEYLKIAQDLEMYGVNYFTIRNKKGTELLLGVDALGLHIYDPENRLTPKISFPWNEIRNISYSDKE
IRESfinder result
IRESfinder score
0.42323235
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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