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mmu_circCnot8_567
Basic information of circular RNA
PanCircBase ID:
mmu_circCnot8_567
mm39_Chr. Position ID:
chr11|58000381|58004039|+
Gene name:
Cnot8
Transcript:
ENSMUST00000020822.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,1704,3496
Genomic length:
3658
Exon/intron sizes in nt:
21,11,94,162
Flanking exon/introns:
chr11:57995034-58000381|chr11:58004039-58004775
Splice length:
567
Other database IDs:
circAtlas: mmu-Cnot8_0007
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_50890
Human Ortholog IDs:
Mature spliced Sequence:
ATTGGATCCAGTGTGGACAATTAAATCAAACAGAAGGAGGCTTGTTTGTTTTTTTACATAGTTGGCTCACGGTGGCTCCTCAGGTGCCTTCAGGATGCCTGCGGCACTTGTAGAAAACAGTCAGGTCATCTGTGAGGTGTGGGCCAGCAATCTTGAGGAAGAGATGCGGAAGATCCGTGAGATTGTCCTCAGCTACAGCTATATCGCTATGGACACAGAGTTCCCAGGTGTTGTTGTACGGCCGATCGGTGAATTTCGAAGCTCCATAGATTACCAGTATCAGCTTCTGCGGTGCAATGTTGATCTTCTTAAAATCATCCAGCTGGGCCTTACGTTCACCAATGAGAAGGGGGAGTACCCGTCTGGAATCAACACATGGCAGTTCAACTTCAAGTTCAACCTGACAGAGGATATGTACTCCCAGGATTCCATAGATCTGCTTGCAAACTCAGGGCTGCAGTTCCAGAAACACGAGGAGGAAGGGATCGATACACTGCACTTTGCAGAGCTGCTTATGACATCGGGAGTGGTTCTCTGTGACAACGTCAAGTGGCTTTCATTTCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGGGAGTGGTTCTCTGTGAC
60.04
CATCCTGAAGGCACCTGAGG
60.11
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACGAGGAGGAAGGGATCGAT
59.81
CCACCGTGAGCCAACTATGT
60.04
172
PCR template sequence:
AACACGAGGAGGAAGGGATCGATACACTGCACTTTGCAGAGCTGCTTATGACATCGGGAGTGGTTCTCTGTGACAACGTCAAGTGGCTTTCATTTCACAGATTGGATCCAGTGTGGACAATTAAATCAAACAGAAGGAGGCTTGTTTGTTTTTTTACATAGTTGGCTCACGGTGGCTCCTCAGGTGCCTTCAGGATGCCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-93-5p(1), mmu-miR-32-5p(1), mmu-miR-203-3p(1), mmu-miR-495-3p(1), mmu-miR-351-5p(1), mmu-miR-363-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCATTTCACAGATTGGATCCAGTG
siRNA sets
GATCCAATCTGTGAAATGA, ATCCAATCTGTGAAATGAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCNOT8_567_ORF_1
1.0856
0.243456629
0.831755413
534
ORF sequence:
ATGCCTGCGGCACTTGTAGAAAACAGTCAGGTCATCTGTGAGGTGTGGGCCAGCAATCTTGAGGAAGAGATGCGGAAGATCCGTGAGATTGTCCTCAGCTACAGCTATATCGCTATGGACACAGAGTTCCCAGGTGTTGTTGTACGGCCGATCGGTGAATTTCGAAGCTCCATAGATTACCAGTATCAGCTTCTGCGGTGCAATGTTGATCTTCTTAAAATCATCCAGCTGGGCCTTACGTTCACCAATGAGAAGGGGGAGTACCCGTCTGGAATCAACACATGGCAGTTCAACTTCAAGTTCAACCTGACAGAGGATATGTACTCCCAGGATTCCATAGATCTGCTTGCAAACTCAGGGCTGCAGTTCCAGAAACACGAGGAGGAAGGGATCGATACACTGCACTTTGCAGAGCTGCTTATGACATCGGGAGTGGTTCTCTGTGACAACGTCAAGTGGCTTTCATTTCACAGATTGGATCCAGTGTGGACAATTAAATCAAACAGAAGGAGGCTTGTTTGTTTTTTTACATAG
Peptide sequence:
MPAALVENSQVICEVWASNLEEEMRKIREIVLSYSYIAMDTEFPGVVVRPIGEFRSSIDYQYQLLRCNVDLLKIIQLGLTFTNEKGEYPSGINTWQFNFKFNLTEDMYSQDSIDLLANSGLQFQKHEEEGIDTLHFAELLMTSGVVLCDNVKWLSFHRLDPVWTIKSNRRRLVCFFT
IRESfinder result
IRESfinder score
0.541126956
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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