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mmu_circCog3_564
Basic information of circular RNA
PanCircBase ID:
mmu_circCog3_564
mm39_Chr. Position ID:
chr14|75966710|75971381|-
Gene name:
Cog3
Transcript:
ENSMUST00000226686.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
9,8,7,6,5
Exon/intron offsets:
0,1324,2705,3640,4627
Genomic length:
4671
Exon/intron sizes in nt:
161,140,92,127,44
Flanking exon/introns:
chr14:75965253-75966710|chr14:75971381-75975402
Splice length:
564
Other database IDs:
circAtlas: mmu-Cog3_0001
circAtlas: hsa-COG3_0005, CIRCpedia: HSA_CIRCpedia_126821
Human Ortholog IDs:
Mature spliced Sequence:
ACTCTAATTGAACAGATAGAGCAACGATCTGAAAAGATACCCGAATACCAGCACCTTCTCAATGACATCCACCAGTGTTACCTTGATCAGCGGGAGCTCCTTTTGGGCCCAAGTATTGCCTACACTGTCACAGAGTTAACCAGCCAGAACAACAGAGACCATTGTGCCTTGGTTCGCAGTGGCTGTGCCTTTATGGTCCATGTCTGCCAAGATGAGCACCAACTTTACAATGAATTTTTCACAAAGCCAACATCAAAATTAGATGAGCTATTGGAGAAATTGTGCGTGTCGTTGTATGATGTGTTCCGGCCCTTGATCATCCATGTCATTCACTTAGAGACTTTATCGGAGCTCTGTGGGATTCTTAAAAACGAAGTGCTTGAAGACCACGTACAGCACAACGCTGAACAACTGGGGGCATTTGCAGCTGGAGTAAAGCAGATGTTGGAAGATGTACAAGAGAGGCTTGTGTATCGAACCCATATCTACATTCAGACGGACATCACAGGCTACAAACCAGCGCCTGGAGATCTGGCATATCCTGATAAGCTAGTCATGATGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTCAGACGGACATCACAGGC
60.04
GCTCCCGCTGATCAAGGTAA
59.82
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACGGACATCACAGGCTACA
59.47
GCTCCCGCTGATCAAGGTAA
59.82
167
PCR template sequence:
GCTTGTGTATCGAACCCATATCTACATTCAGACGGACATCACAGGCTACAAACCAGCGCCTGGAGATCTGGCATATCCTGATAAGCTAGTCATGATGGAGACTCTAATTGAACAGATAGAGCAACGATCTGAAAAGATACCCGAATACCAGCACCTTCTCAATGACATCCACCAGTGTTACCTTGATCAGCGGGAGCTCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AGTCATGATGGAGACTCTAATTGAAC
siRNA sets
TTAGAGTCTCCATCATGAC,ATTAGAGTCTCCATCATGA,TTCAATTAGAGTCTCCATC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCOG3_564_ORF_1
1.2264
0.228895909
0.991000478
936
ORF sequence:
ATGGTCCATGTCTGCCAAGATGAGCACCAACTTTACAATGAATTTTTCACAAAGCCAACATCAAAATTAGATGAGCTATTGGAGAAATTGTGCGTGTCGTTGTATGATGTGTTCCGGCCCTTGATCATCCATGTCATTCACTTAGAGACTTTATCGGAGCTCTGTGGGATTCTTAAAAACGAAGTGCTTGAAGACCACGTACAGCACAACGCTGAACAACTGGGGGCATTTGCAGCTGGAGTAAAGCAGATGTTGGAAGATGTACAAGAGAGGCTTGTGTATCGAACCCATATCTACATTCAGACGGACATCACAGGCTACAAACCAGCGCCTGGAGATCTGGCATATCCTGATAAGCTAGTCATGATGGAGACTCTAATTGAACAGATAGAGCAACGATCTGAAAAGATACCCGAATACCAGCACCTTCTCAATGACATCCACCAGTGTTACCTTGATCAGCGGGAGCTCCTTTTGGGCCCAAGTATTGCCTACACTGTCACAGAGTTAACCAGCCAGAACAACAGAGACCATTGTGCCTTGGTTCGCAGTGGCTGTGCCTTTATGGTCCATGTCTGCCAAGATGAGCACCAACTTTACAATGAATTTTTCACAAAGCCAACATCAAAATTAGATGAGCTATTGGAGAAATTGTGCGTGTCGTTGTATGATGTGTTCCGGCCCTTGATCATCCATGTCATTCACTTAGAGACTTTATCGGAGCTCTGTGGGATTCTTAAAAACGAAGTGCTTGAAGACCACGTACAGCACAACGCTGAACAACTGGGGGCATTTGCAGCTGGAGTAAAGCAGATGTTGGAAGATGTACAAGAGAGGCTTGTGTATCGAACCCATATCTACATTCAGACGGACATCACAGGCTACAAACCAGCGCCTGGAGATCTGGCATATCCTGATAAGCTAGTCATGATGGAG
Peptide sequence:
MVHVCQDEHQLYNEFFTKPTSKLDELLEKLCVSLYDVFRPLIIHVIHLETLSELCGILKNEVLEDHVQHNAEQLGAFAAGVKQMLEDVQERLVYRTHIYIQTDITGYKPAPGDLAYPDKLVMMETLIEQIEQRSEKIPEYQHLLNDIHQCYLDQRELLLGPSIAYTVTELTSQNNRDHCALVRSGCAFMVHVCQDEHQLYNEFFTKPTSKLDELLEKLCVSLYDVFRPLIIHVIHLETLSELCGILKNEVLEDHVQHNAEQLGAFAAGVKQMLEDVQERLVYRTHIYIQTDITGYKPAPGDLAYPDKLVMME
IRESfinder result
IRESfinder score
0.56288328
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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