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mmu_circArfgef2_807
Basic information of circular RNA
PanCircBase ID:
mmu_circArfgef2_807
mm39_Chr. Position ID:
chr2|166668846|166684673|+
Gene name:
Arfgef2
Transcript:
ENSMUST00000099078.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
2,3,4,5,6,7
Exon/intron offsets:
0,615,7544,8686,9275,15758
Genomic length:
15827
Exon/intron sizes in nt:
31,124,147,180,256,69
Flanking exon/introns:
chr2:166647755-166668846|chr2:166684673-166687369
Splice length:
807
Other database IDs:
circAtlas: mmu-Arfgef2_0006
circAtlas: hsa-ARFGEF2_0005, CIRCpedia: HSA_CIRCpedia_34519
Human Ortholog IDs:
Mature spliced Sequence:
ATGAAATTAAAGCAGAACTAGAAAAGCAGAGGCTTGGCGCTGCGGCTCCACCAAAGGCAAACTTCATTGAAGCTGACAAGTATTTCCTTCCATTCGAGCTGGCCTGCCAATCCAAGTCACCTCGGGTGGTCAGCACATCCCTGGACTGCTTGCAGAAACTCATCGCATATGGACACATCACTGGCAATGCCCCTGACAGTGGCGCTCCTGGGAAGCGGCTGATCGACAGGATCGTTGAAACCATTTGCAATTGTTTTCAGGGCCCTCAGACAGATGAAGGGGTTCAGCTACAAATCATTAAGGCTCTGCTGACTGCTGTGACATCCCCACACATTGAAATCCATGAGGGCACCATCCTGCAGACAGTGAGGACCTGCTACAATATCTATCTGGCCAGCAAAAACCTCATCAATCAAACCACCGCCAAGGCCACCCTTACCCAAATGCTGAATGTCATCTTCACCCGCATGGAAAACCAAGTGTTACAGGAGGCCAGAGAATTGGAAAAACCAATGCAGTCAAAACCTCAGTCCCCGGTGATCCAGGCCACAGCAGGCTCTCCCAAGTTCAGCCGCCTGAAGCAGAGCCAGGCCCAGAGCAAACCCACGACTCCTGAGAAAGCAGAGCTGCCCAATGGGGACCATGCCCAGAGTGGCCTAGGAAAAGTGAGCTTGGAAAATGGAGAAGCTCCCCGAGAGAGAGGCTCGCCAGTCTCTGGGAGAGCCGAGCCTTCGAGGGGCACTGACAGTGGAGCTCAGGAGGTGGTGAAGGACATCTTAGAGGACGTGGTCACGTCTGCTGTGAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTCTCTGGGAGAGCCGAG
60.08
AAGTTTGCCTTTGGTGGAGC
59.25
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTTCGAGGGGCACTGACAG
60.08
AAGTTTGCCTTTGGTGGAGC
59.25
142
PCR template sequence:
CCAGTCTCTGGGAGAGCCGAGCCTTCGAGGGGCACTGACAGTGGAGCTCAGGAGGTGGTGAAGGACATCTTAGAGGACGTGGTCACGTCTGCTGTGAAAGATGAAATTAAAGCAGAACTAGAAAAGCAGAGGCTTGGCGCTGCGGCTCCACCAAAGGCAAACTTCATTGAAGCTGACAAGTATTTCCTTCCATTCGAGCT
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-326-3p(2), mmu-miR-181a-5p(1), mmu-miR-181b-5p(1), mmu-miR-149-5p(1), mmu-miR-370-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-466a-5p(1), mmu-miR-129-5p(1), mmu-miR-181d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTGCTGTGAAAGATGAAATTAAAGC
siRNA sets
TAATTTCATCTTTCACAGC,TTAATTTCATCTTTCACAG,AATTTCATCTTTCACAGCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARFGEF2_807_ORF_1
1.1652
0.387362195
0.999006105
1170
ORF sequence:
ATGCTGAATGTCATCTTCACCCGCATGGAAAACCAAGTGTTACAGGAGGCCAGAGAATTGGAAAAACCAATGCAGTCAAAACCTCAGTCCCCGGTGATCCAGGCCACAGCAGGCTCTCCCAAGTTCAGCCGCCTGAAGCAGAGCCAGGCCCAGAGCAAACCCACGACTCCTGAGAAAGCAGAGCTGCCCAATGGGGACCATGCCCAGAGTGGCCTAGGAAAAGTGAGCTTGGAAAATGGAGAAGCTCCCCGAGAGAGAGGCTCGCCAGTCTCTGGGAGAGCCGAGCCTTCGAGGGGCACTGACAGTGGAGCTCAGGAGGTGGTGAAGGACATCTTAGAGGACGTGGTCACGTCTGCTGTGAAAGATGAAATTAAAGCAGAACTAGAAAAGCAGAGGCTTGGCGCTGCGGCTCCACCAAAGGCAAACTTCATTGAAGCTGACAAGTATTTCCTTCCATTCGAGCTGGCCTGCCAATCCAAGTCACCTCGGGTGGTCAGCACATCCCTGGACTGCTTGCAGAAACTCATCGCATATGGACACATCACTGGCAATGCCCCTGACAGTGGCGCTCCTGGGAAGCGGCTGATCGACAGGATCGTTGAAACCATTTGCAATTGTTTTCAGGGCCCTCAGACAGATGAAGGGGTTCAGCTACAAATCATTAAGGCTCTGCTGACTGCTGTGACATCCCCACACATTGAAATCCATGAGGGCACCATCCTGCAGACAGTGAGGACCTGCTACAATATCTATCTGGCCAGCAAAAACCTCATCAATCAAACCACCGCCAAGGCCACCCTTACCCAAATGCTGAATGTCATCTTCACCCGCATGGAAAACCAAGTGTTACAGGAGGCCAGAGAATTGGAAAAACCAATGCAGTCAAAACCTCAGTCCCCGGTGATCCAGGCCACAGCAGGCTCTCCCAAGTTCAGCCGCCTGAAGCAGAGCCAGGCCCAGAGCAAACCCACGACTCCTGAGAAAGCAGAGCTGCCCAATGGGGACCATGCCCAGAGTGGCCTAGGAAAAGTGAGCTTGGAAAATGGAGAAGCTCCCCGAGAGAGAGGCTCGCCAGTCTCTGGGAGAGCCGAGCCTTCGAGGGGCACTGACAGTGGAGCTCAGGAGGTGGTGAAGGACATCTTAGAGGACGTGGTCACGTCTGCTGTGAAA
Peptide sequence:
MLNVIFTRMENQVLQEARELEKPMQSKPQSPVIQATAGSPKFSRLKQSQAQSKPTTPEKAELPNGDHAQSGLGKVSLENGEAPRERGSPVSGRAEPSRGTDSGAQEVVKDILEDVVTSAVKDEIKAELEKQRLGAAAPPKANFIEADKYFLPFELACQSKSPRVVSTSLDCLQKLIAYGHITGNAPDSGAPGKRLIDRIVETICNCFQGPQTDEGVQLQIIKALLTAVTSPHIEIHEGTILQTVRTCYNIYLASKNLINQTTAKATLTQMLNVIFTRMENQVLQEARELEKPMQSKPQSPVIQATAGSPKFSRLKQSQAQSKPTTPEKAELPNGDHAQSGLGKVSLENGEAPRERGSPVSGRAEPSRGTDSGAQEVVKDILEDVVTSAVK
IRESfinder result
IRESfinder score
0.459335685
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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