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mmu_ciCux2_637
Basic information of circular RNA
PanCircBase ID:
mmu_ciCux2_637
mm39_Chr. Position ID:
chr5|122012504|122013141|-
Gene name:
Cux2
Transcript:
ENSMUST00000111752.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
637
Exon/intron sizes in nt:
637
Flanking exon/introns:
chr5:122012364-122013141
Splice length:
637
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGGGACGAGGAACTCACCGAGGGGGCACTTGGGCTGAGGGGCTGGACAAGGATGCCCTTGGACTTCTTCATGCCCCAGGATCACTGCAATTCATGAGGCAGAAGAATCCAGACCGGGGATGTAGGCTGGGCATTTGCTGGGTGATGCTTCCCAGGTTCAGGGTCACAGGTAGACCCAAGGCTCCCAGTGACTTCCCTGGACCCTGACTCTAGCTGGATACTGGAACTTTAATAAGAACTCAGGAGTCAGGGGAGGGGTGTCTATACCCTACCCTACAGCCGACCCCCAGGGCATGGCCCACAGCTTAAAATTGCCCTTCTTCCCACAAATGGCTCAGTGGCCCTGTAGCCTTGTGACCTTCGCCAAGATGGCAGGCTCATTATTGGTCTCTTAAATGGGAAGTGCTGGGTGGCCTGAGTGACTAGGCACTGGAGGCATTAGACCCCTGGGGTGACTGTGACTCCCTTCCTGCTTGCTAGGATAATGTCCCCAATGGCAGCAGGTGGGTCCCACAAGCTAGCATTTGAAGGGGGTCTGAGGAGGTGGGGTTCGAGAATGAGGGACAACAGCAAGCATGGGTATTTATGGCTTCTGAGACCTATAGCTAGTCCCTCATCCTGTCCCCCCATTACCC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGAGGGACAACAGCAAGCAT
59.89
CAGTGATCCTGGGGCATGAA
59.74
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGGGACAACAGCAAGCA
59.89
CAGTGATCCTGGGGCATGAA
59.74
168
PCR template sequence:
CTGAGGAGGTGGGGTTCGAGAATGAGGGACAACAGCAAGCATGGGTATTTATGGCTTCTGAGACCTATAGCTAGTCCCTCATCCTGTCCCCCCATTACCCGTAGGGGACGAGGAACTCACCGAGGGGGCACTTGGGCTGAGGGGCTGGACAAGGATGCCCTTGGACTTCTTCATGCCCCAGGATCACTGCAATTCATGAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-224-5p(1), mmu-miR-690(1)
siRNAs for circular RNA silencing
Junction sequence
CCCCCCATTACCCGTAGGGGACGAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CICUX2_637_ORF_1
0.7547
-0.0514455
0.185142273
360
ORF sequence:
ATGTCCCCAATGGCAGCAGGTGGGTCCCACAAGCTAGCATTTGAAGGGGGTCTGAGGAGGTGGGGTTCGAGAATGAGGGACAACAGCAAGCATGGGTATTTATGGCTTCTGAGACCTATAGCTAGTCCCTCATCCTGTCCCCCCATTACCCGTAGGGGACGAGGAACTCACCGAGGGGGCACTTGGGCTGAGGGGCTGGACAAGGATGCCCTTGGACTTCTTCATGCCCCAGGATCACTGCAATTCATGAGGCAGAAGAATCCAGACCGGGGATGTAGGCTGGGCATTTGCTGGGTGATGCTTCCCAGGTTCAGGGTCACAGGTAGACCCAAGGCTCCCAGTGACTTCCCTGGACCCTGA
Peptide sequence:
MSPMAAGGSHKLAFEGGLRRWGSRMRDNSKHGYLWLLRPIASPSSCPPITRRGRGTHRGGTWAEGLDKDALGLLHAPGSLQFMRQKNPDRGCRLGICWVMLPRFRVTGRPKAPSDFPGP
IRESfinder result
IRESfinder score
0.498506437
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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