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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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Institute of Life sciences, Bhubaneswar, India

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