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mmu_ciDpm2_1001
Basic information of circular RNA
PanCircBase ID:
mmu_ciDpm2_1001
mm39_Chr. Position ID:
chr2|32461307|32462308|+
Gene name:
Dpm2
Transcript:
ENSMUST00000140592.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
2
Exon/intron offsets:
0
Genomic length:
1001
Exon/intron sizes in nt:
1001
Flanking exon/introns:
chr2:32461307-32462308
Splice length:
1001
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATGTGTGCCCCACCCCCACCCCGCTCACCTTCATTTTGCTCTGGATCTCTAAGCCAGTTTCCTAACGCGACTTAATCAGCGTCTGTGTGCCAGCGTCTGGATGTTTAGCTAGCTCTAATCTCACGAAATCTACACTATGGTGCTTGCAGATGGTGTCTACATTTTATAGATGAGGAGGCTAAGACTCGGGGAGAAGGCTGTTTCTCAGCCTCTGAACTGCCGCACAGTGAGGCTTTATTTTGTGTTTGTCCTCCTGGTTAGCCAGCAGGTTCCTGGGTGTAGCAGTCGCCGGTGGAGTTTATTAACATCTCAAGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTGCCTCTCTCTTTAATGTGGGAAATTTTGTTAGTTATTGTTTTAAAGTACACTGTGCTTGGAAAGGGGCATCTTGCAGTACTTGGTATCCTTCAGAGAGGAAAGTTAGGTGGGCTGACCTTCGGTGATGAAGAGAACTGGCTGATTCTCCAGAGGACTGGGGTTCAAGTTCCAGCACCCACATGGCCAGCTACAACCATCTGTAACTCCAGCTCCAGGAGACCCAGCAAAAGTCCCTGGAACGGAACGCCATTGCTGCTTAAGTTGTGTTAGGAGTTAGATTGGAGATCCAGGGCTTGGATGAAAGTACACCTGGACTCACAGGCACAAATGCATGATCAAAAAATAAAGACCTCTTTAAAAGACCTAGAGTTCTCAGAAGGCAGAAGAAGGGGGGAGGGCAGCTTGGTGAGGTCAGCCAGGGCCTCAGAAATCAAAAAGGATGGTTTCCAGCACTCACAAGGCCCAGGCAGTATTCAACAATACAGAGACAATATGGTGGGTCTCTTGTTATGATACATATCCACGCTTGGGGATGCTATCAAGGTGGGCCCTCAGTATCCAGTGCTGCCAGGGGGAGGTGGGACGGCTTCCCTTTGGGGCTGAGTAAGGTGAGCAGTACTCACCAGAGCTCTTGCCCTTGGTGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTCAGTATCCAGTGCTGCC
60.18
TCGCGTTAGGAAACTGGCTT
59.97
170
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCTCAGTATCCAGTGCTGC
60.18
TCGCGTTAGGAAACTGGCTT
59.97
171
PCR template sequence:
GCCCTCAGTATCCAGTGCTGCCAGGGGGAGGTGGGACGGCTTCCCTTTGGGGCTGAGTAAGGTGAGCAGTACTCACCAGAGCTCTTGCCCTTGGTGCCAGGTATGTGTGCCCCACCCCCACCCCGCTCACCTTCATTTTGCTCTGGATCTCTAAGCCAGTTTCCTAACGCGACTTAATCAGCGTCTGTGTGCCAGCGTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-200c-3p(1), mmu-miR-322-5p(1), mmu-miR-709(1), mmu-miR-324-5p(1), mmu-miR-434-3p(1), mmu-miR-190b-5p(1), mmu-miR-207(1), mmu-miR-188-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCCTTGGTGCCAGGTATGTGTGCCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIDPM2_1001_ORF_5
0.6651
-0.2055665
0.029085481
192
ORF sequence:
ATGATACATATCCACGCTTGGGGATGCTATCAAGGTGGGCCCTCAGTATCCAGTGCTGCCAGGGGGAGGTGGGACGGCTTCCCTTTGGGGCTGAGTAAGGTGAGCAGTACTCACCAGAGCTCTTGCCCTTGGTGCCAGGTATGTGTGCCCCACCCCCACCCCGCTCACCTTCATTTTGCTCTGGATCTCTAA
Peptide sequence:
MIHIHAWGCYQGGPSVSSAARGRWDGFPLGLSKVSSTHQSSCPWCQVCVPHPHPAHLHFALDL
IRESfinder result
IRESfinder score
0.760853813
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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