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mmu_circArfgef2_330
Basic information of circular RNA
PanCircBase ID:
mmu_circArfgef2_330
mm39_Chr. Position ID:
chr2|166718412|166720492|+
Gene name:
Arfgef2
Transcript:
ENSMUST00000099078.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
31,32,33
Exon/intron offsets:
0,1778,2025
Genomic length:
2080
Exon/intron sizes in nt:
136,139,55
Flanking exon/introns:
chr2:166715912-166718412|chr2:166720492-166723091
Splice length:
330
Other database IDs:
CIRCpedia: MMU_CIRCpedia_218412, circAtlas: mmu-Arfgef2_0017
circAtlas: hsa-ARFGEF2_0016
Human Ortholog IDs:
Mature spliced Sequence:
AAATCAGAGTGGATGACGACCACGTGCAATCATGCACTGTACGCTATTTGTGACGTATTCACCCAGTTCTACGAAGCTTTGCATGAAGTGCTTCTCTCTGATGTGTTTGCGCAGCTGCAGTGGTGCGTGAAACAAGATAATGAGCAGTTGGCCCGATCAGGTACGAACTGCTTAGAGAACCTAGTGATATCCAACGGCGAGAAGTTCAGCCCTGCTGTCTGGGATGAAACCTGCAATTGCATGTTGGATATTTTCAAAACCACCATCCCACATGTTTTGCTGACGTGGAGACCTGCGGGGATGGAGGAGGAGGTGTCAGATAGACATCTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACATGTTTTGCTGACGT
59.33
GCAAAGCTTCGTAGAACTGGG
59.54
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACATGTTTTGCTGACGT
59.33
AGCTTCGTAGAACTGGGTGA
58.37
142
PCR template sequence:
CTGCAATTGCATGTTGGATATTTTCAAAACCACCATCCCACATGTTTTGCTGACGTGGAGACCTGCGGGGATGGAGGAGGAGGTGTCAGATAGACATCTGAAATCAGAGTGGATGACGACCACGTGCAATCATGCACTGTACGCTATTTGTGACGTATTCACCCAGTTCTACGAAGCTTTGCATGAAGTGCTTCTCTCTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-19a-3p(1), mmu-miR-152-3p(1), mmu-miR-148b-3p(1), mmu-miR-25-3p(1), mmu-miR-363-3p(1), mmu-miR-350-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGATAGACATCTGAAATCAGAGTGGA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARFGEF2_330_ORF_1
0.974
0.242456841
0.90205084
648
ORF sequence:
ATGACGACCACGTGCAATCATGCACTGTACGCTATTTGTGACGTATTCACCCAGTTCTACGAAGCTTTGCATGAAGTGCTTCTCTCTGATGTGTTTGCGCAGCTGCAGTGGTGCGTGAAACAAGATAATGAGCAGTTGGCCCGATCAGGTACGAACTGCTTAGAGAACCTAGTGATATCCAACGGCGAGAAGTTCAGCCCTGCTGTCTGGGATGAAACCTGCAATTGCATGTTGGATATTTTCAAAACCACCATCCCACATGTTTTGCTGACGTGGAGACCTGCGGGGATGGAGGAGGAGGTGTCAGATAGACATCTGAAATCAGAGTGGATGACGACCACGTGCAATCATGCACTGTACGCTATTTGTGACGTATTCACCCAGTTCTACGAAGCTTTGCATGAAGTGCTTCTCTCTGATGTGTTTGCGCAGCTGCAGTGGTGCGTGAAACAAGATAATGAGCAGTTGGCCCGATCAGGTACGAACTGCTTAGAGAACCTAGTGATATCCAACGGCGAGAAGTTCAGCCCTGCTGTCTGGGATGAAACCTGCAATTGCATGTTGGATATTTTCAAAACCACCATCCCACATGTTTTGCTGACGTGGAGACCTGCGGGGATGGAGGAGGAGGTGTCAGATAGACATCTG
Peptide sequence:
MTTTCNHALYAICDVFTQFYEALHEVLLSDVFAQLQWCVKQDNEQLARSGTNCLENLVISNGEKFSPAVWDETCNCMLDIFKTTIPHVLLTWRPAGMEEEVSDRHLKSEWMTTTCNHALYAICDVFTQFYEALHEVLLSDVFAQLQWCVKQDNEQLARSGTNCLENLVISNGEKFSPAVWDETCNCMLDIFKTTIPHVLLTWRPAGMEEEVSDRHL
IRESfinder result
IRESfinder score
0.464710971
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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