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mmu_circCct8_1061
Basic information of circular RNA
PanCircBase ID:
mmu_circCct8_1061
mm39_Chr. Position ID:
chr16|87283123|87290674|-
Gene name:
Cct8
Transcript:
ENSMUST00000026704.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
11,10,9,8,7,6,5,4,3
Exon/intron offsets:
0,197,359,1298,2571,4085,4249,5066,7471
Genomic length:
7551
Exon/intron sizes in nt:
116,88,67,179,138,62,181,150,80
Flanking exon/introns:
chr16:87282793-87283123|chr16:87290674-87291224
Splice length:
1061
Other database IDs:
CIRCpedia: MMU_CIRCpedia_32865, circAtlas: mmu-Cct8_0008
Human Ortholog IDs:
Mature spliced Sequence:
GAATGAATAAAATGGTCATCAATCGCCTGGAGAAGTTGTTTGTGACAAACGATGCAGCGACTATTTTAAGAGAGCTAGAAGTGCAGCATCCTGCTGCAAAGATGATAGTGATGGCCTCTCATATGCAAGAACAAGAGGTTGGTGATGGCACAAACTTCGTTCTGGTGTTCGCTGGGGCTCTTCTGGAACTAGCTGAAGAACTTCTGAGGATTGGCCTGTCAGTATCAGAGGTAATATCGGGGTATGAAATAGCTTGCAAAAAAGCTCATGAGATCCTTCCTGAGTTGGTATGTTGTTCTGCCAAAAACCTTCGAGATGTTGATGAAGTGTCCTCTCTGCTTCGAACCTCCATCATGAGTAAGCAGTACGGCAGCGAGACGTTTTTGGCCAAGCTTATTGCTCAGGCTTGTGTTTCTATCTTTCCTGATTCTGGCAATTTCAATGTTGATAACATCAGAGTATGTAAGATTCTGGGCTCTGGTATTTATTCATCCTCAGTATTACATGGCATGGTTTTTAAGAAGGAAACTGAAGGTGATGTGACATCTGTCAAAGATGCAAAGATAGCTGTGTACTCTTGTCCGTTTGATGGCATGATAACAGAGACAAAGGGGACCGTGCTGATTAAGACTGCCGAGGAGCTAATGAACTTCAGTAAGGGAGAGGAGAACCTCATGGATGCTCAGGTGAAGGCCATTGCAGGCACTGGTGCAAATGTCATAGTAACAGGCGGCAAAGTGGCGGACATAGCTCTTCATTATGCTAACAAGTACAATATCATGTTGGTGAGACTGAACTCAAAGTGGGATCTCAGACGACTCTGTAAAACAGTTGGTGCCACAGCTCTTCCAAAATTGACTCCTCCCGTCCAAGAAGAAATGGGACATTGTGACAGTGTTTACCTCTCAGAAGTTGGAGATACACAAGTGGTTGTTTTTAAGCATGAAAAAGAAGATGGTGCCATTTCTACTATAGTTCTTCGAGGTTCTACAGACAATCTGATGGATGACATAGAAAGGGCAGTAGATGATGGAGTTAATACTTTCAAAGTTCTCACAAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGATGACATAGAAAGGGCAGT
59.15
CAGGATGCTGCACTTCTAGCT
60.13
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGATGACATAGAAAGGGCAGT
59.15
GGATGCTGCACTTCTAGCTCT
59.86
150
PCR template sequence:
CATTTCTACTATAGTTCTTCGAGGTTCTACAGACAATCTGATGGATGACATAGAAAGGGCAGTAGATGATGGAGTTAATACTTTCAAAGTTCTCACAAGGGAATGAATAAAATGGTCATCAATCGCCTGGAGAAGTTGTTTGTGACAAACGATGCAGCGACTATTTTAAGAGAGCTAGAAGTGCAGCATCCTGCTGCAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-27b-3p(1), mmu-miR-200c-3p(1), mmu-miR-30c-5p(1), mmu-miR-433-3p(1), mmu-miR-129-5p(1), mmu-miR-207(1), mmu-miR-452-3p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGTTCTCACAAGGGAATGAATAAAAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCCT8_1061_ORF_1
1.0446
0.15218358
0.993018511
1065
ORF sequence:
ATGAATAAAATGGTCATCAATCGCCTGGAGAAGTTGTTTGTGACAAACGATGCAGCGACTATTTTAAGAGAGCTAGAAGTGCAGCATCCTGCTGCAAAGATGATAGTGATGGCCTCTCATATGCAAGAACAAGAGGTTGGTGATGGCACAAACTTCGTTCTGGTGTTCGCTGGGGCTCTTCTGGAACTAGCTGAAGAACTTCTGAGGATTGGCCTGTCAGTATCAGAGGTAATATCGGGGTATGAAATAGCTTGCAAAAAAGCTCATGAGATCCTTCCTGAGTTGGTATGTTGTTCTGCCAAAAACCTTCGAGATGTTGATGAAGTGTCCTCTCTGCTTCGAACCTCCATCATGAGTAAGCAGTACGGCAGCGAGACGTTTTTGGCCAAGCTTATTGCTCAGGCTTGTGTTTCTATCTTTCCTGATTCTGGCAATTTCAATGTTGATAACATCAGAGTATGTAAGATTCTGGGCTCTGGTATTTATTCATCCTCAGTATTACATGGCATGGTTTTTAAGAAGGAAACTGAAGGTGATGTGACATCTGTCAAAGATGCAAAGATAGCTGTGTACTCTTGTCCGTTTGATGGCATGATAACAGAGACAAAGGGGACCGTGCTGATTAAGACTGCCGAGGAGCTAATGAACTTCAGTAAGGGAGAGGAGAACCTCATGGATGCTCAGGTGAAGGCCATTGCAGGCACTGGTGCAAATGTCATAGTAACAGGCGGCAAAGTGGCGGACATAGCTCTTCATTATGCTAACAAGTACAATATCATGTTGGTGAGACTGAACTCAAAGTGGGATCTCAGACGACTCTGTAAAACAGTTGGTGCCACAGCTCTTCCAAAATTGACTCCTCCCGTCCAAGAAGAAATGGGACATTGTGACAGTGTTTACCTCTCAGAAGTTGGAGATACACAAGTGGTTGTTTTTAAGCATGAAAAAGAAGATGGTGCCATTTCTACTATAGTTCTTCGAGGTTCTACAGACAATCTGATGGATGACATAGAAAGGGCAGTAGATGATGGAGTTAATACTTTCAAAGTTCTCACAAGGGAATGA
Peptide sequence:
MNKMVINRLEKLFVTNDAATILRELEVQHPAAKMIVMASHMQEQEVGDGTNFVLVFAGALLELAEELLRIGLSVSEVISGYEIACKKAHEILPELVCCSAKNLRDVDEVSSLLRTSIMSKQYGSETFLAKLIAQACVSIFPDSGNFNVDNIRVCKILGSGIYSSSVLHGMVFKKETEGDVTSVKDAKIAVYSCPFDGMITETKGTVLIKTAEELMNFSKGEENLMDAQVKAIAGTGANVIVTGGKVADIALHYANKYNIMLVRLNSKWDLRRLCKTVGATALPKLTPPVQEEMGHCDSVYLSEVGDTQVVVFKHEKEDGAISTIVLRGSTDNLMDDIERAVDDGVNTFKVLTRE
IRESfinder result
IRESfinder score
0.495736521
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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