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mmu_ciChd8_1057
Basic information of circular RNA
PanCircBase ID:
mmu_ciChd8_1057
mm39_Chr. Position ID:
chr14|52458881|52459938|-
Gene name:
Chd8
Transcript:
ENSMUST00000089752.11
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
10
Exon/intron offsets:
0
Genomic length:
1057
Exon/intron sizes in nt:
1057
Flanking exon/introns:
chr14:52458881-52459938
Splice length:
1057
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTGCATCTGGATTTAGAAGACAAGCGTAGTGGAAAGGACTGTCAAGACTTTATTTTCTTTTCCTACTTGCAGTTTTTATTGGTTTAGCTTTCTGTTATGGAAATTCTCTTAACATGTAAGAAAGGGTTAACTATGATATAATATAATATAATATACCAATCATTAAGGCAGAGTTAATACGTGTTCAATTGTGCGTCTTATTTTAAATCAAATTACACATCACATCTAGAGCTTCAACGGGCAGAAAAGGGAAAGCAGTGCATTTGTTCATACACGGTCTGTACTTGAGTCCGGTTGTATTTTGTGATGTCCTCGTTGTCTGCATTTAAGCTTTGTAGCACATGTCTGCCTTCCAAGCTACTTGAGATGTGGAGATATTGAAGTGCAAGGTCAGCCTAGACAGATGAGATACTGTCTCCCAAAACAAAGCACAAAATGTCATATTTATTTGGTTCGTTTGATGTTTGGTTTTCAAGACGGTTTCTCTTTATAACCTTTGCTATCCTAACTTACTCTGTAAACCAGGCTGGCCTCAAACCCAGAGTTCCAGTGGCCTCTGCCTCCCGAGTGCTGAGATTAAAGGTGTGTGCTGTGAAAAGATTCTTCAAGGCTTAGAAACCCAGGGTCCCTCCTGCCTCATCGCTGTGAGGGCCAGGATTACAGGCATACATCACTGCACCCAATTTTCTTTAAGGACTTCGTTTTAAATTTTCTTTCTTTCCCCTTTTATAATATTTATTTTATGTGTATGTGTGATTTCTCTGCACAACAGAAGGCAGCATTGAATCCCATGTCTCTACAGTTATAAACTCTTGTGAGCTGCCATGTGAATGCTAGAATTCAATAAACTCAGAAAGTCTGGAAGAGCAGGCAGTGGGCTTCGCTCTTGAACTCTCTCTCTTCAGCCCTCTAAATATTTTAACTGTAGTTTCCTGGCATCTTCCTCAAGTATCCTATGGGCTGTCTTTAAAAAATAATATACATTCATGAATACAAATGTATTTCACAAGTTATAACCCACTGCTCCACTAATTCAAAGTTTTTACTTTTTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTATAACCCACTGCTCCACT
58.82
CAGAAAGCTAAACCAATAAAAACTGCA
59.56
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTATAACCCACTGCTCCACT
58.82
ACAGAAAGCTAAACCAATAAAAACTGC
59.56
144
PCR template sequence:
CTATGGGCTGTCTTTAAAAAATAATATACATTCATGAATACAAATGTATTTCACAAGTTATAACCCACTGCTCCACTAATTCAAAGTTTTTACTTTTTAGGTAAGTGCATCTGGATTTAGAAGACAAGCGTAGTGGAAAGGACTGTCAAGACTTTATTTTCTTTTCCTACTTGCAGTTTTTATTGGTTTAGCTTTCTGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
14
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1), mmu-miR-328-3p(1), mmu-miR-216a-5p(1), mmu-miR-709(1), mmu-miR-185-5p(1), mmu-miR-139-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-127-5p(1), mmu-miR-340-5p(1), mmu-miR-377-3p(1), mmu-miR-673-5p(1), mmu-miR-539-5p(1), mmu-miR-466b-3p(1), mmu-miR-7a-1-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTTACTTTTTAGGTAAGTGCATCTG
siRNA sets
ATGCACTTACCTAAAAAGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.894127082
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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