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mmu_ciCog6_1172
Basic information of circular RNA
PanCircBase ID:
mmu_ciCog6_1172
mm39_Chr. Position ID:
chr3|52902256|52903428|-
Gene name:
Cog6
Transcript:
ENSMUST00000036665.10
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
13
Exon/intron offsets:
0
Genomic length:
1172
Exon/intron sizes in nt:
1172
Flanking exon/introns:
chr3:52900992-52903428
Splice length:
1172
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGGGTCCTCCTGGCCTCCCTGGGCTGCGGCCATGCCAATGGGAACTACATGTTTGGACCTTAGTGATATTTTTTCCTTTTCAAGTTGATGTTGGGGAAGTTTAGTAGCTCCCAGGTCAGAGTTAATCTTCCAGGATTAGCATAACTTCACTCTAATGTGAGAAAAAAATCTCAAGGTGAGTTCATTACTTTGTTTTCTAAAAATTTTAAAATTAAAAAAAATTTTTTAAATACAGAATTTACCGAGGATGCCTGTGTTAGAGCTGATGTGACACAGTGAAGCCTGGAGCTCTTACAAAGTGTTTCCAAACAGTTTCATAGTCTCATGTTCTAATGGTGCAGCTTCGTCTTCTGTATCACATACATAAACATATACATAAACATATACATATGAAAGGGATAGGAAACTACCATGTAATATAAGCAGACAGCGAGCCCAAGGGATGCGTATGGTCTCGTGTTGTAAGTTGAGCAGAATTCTGTAGCAGGAATAATTACTCCTTGTCAGCTTCAAGTTTGAGTTCTGCTGCTAGATGCTTCCTTGGAGCTAACTATTGTAGCTCCTATCACACACTGCTCTTTTCACTCTCATAAAATGCCTTTATGTAGCGACCTGTCTGCCCTCCTGTGTCCTGTGTCCTGTGTCCTGCGCCCTGCGCCCTGCGCCCTGCGTCCTGTGTCCTGCCTGCTGTGGAGGTGACTGTGCTGCTTTCACTGGAGTGTTTGCAGAGCATCTCTCTCTCCTGCCCTTTGACTTTGCTTGTTAGAAGATCGCATACACTTTGACCATGGTTTGATAAACAATAAATTCGTACTTAGTCTTTGCCTTTTGATGAGTATGTTTAACCCGTTTACATTTGGATGGCTTCCTGACACTTGAATTTGTTAGATTGCTCTTTGTTTTCTCTATGTCTTAAGTTTTCATTCCCCTTTCTGTCTTTCTGACACAAGGGTATAGTTTCTTAACAAAGACTTCAGTTGCCAAATTTTGTTTCATTTACAATCTTATCTGTTAACTATTCTGACATCCTTTTAAAGTTTCATAGGCAGAATCTCATACTTGCATAAGACCTTTTAATATTAAAAAGAAACAAAATTAAGAAGTCGGTTCCCAGGAGCCCCCTGGTGGTGCTTGCGAGCAGCAGTGTTGTTAGGCCGGGCTTCCTTTTCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGAAGTCGGTTCCCAGGAG
59.02
CTTCCCCAACATCAACTTGA
55.55
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAGTCGGTTCCCAGGAGC
60.08
CTTCCCCAACATCAACTTGA
55.55
172
PCR template sequence:
TTTTAATATTAAAAAGAAACAAAATTAAGAAGTCGGTTCCCAGGAGCCCCCTGGTGGTGCTTGCGAGCAGCAGTGTTGTTAGGCCGGGCTTCCTTTTCCTGTGGGTCCTCCTGGCCTCCCTGGGCTGCGGCCATGCCAATGGGAACTACATGTTTGGACCTTAGTGATATTTTTTCCTTTTCAAGTTGATGTTGGGGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-15a-5p(1), mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-29b-3p(1), mmu-miR-324-5p(1), mmu-miR-185-5p(1), mmu-miR-214-3p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-297a-5p(1), mmu-miR-1187(1), mmu-miR-300-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTTCCTTTTCCTGTGGGTCCTCCTG
siRNA sets
GAGGACCCACAGGAAAAGG, AGGACCCACAGGAAAAGGA, ACCCACAGGAAAAGGAAGC
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
0.880394744
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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