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mmu_circDnajb11_457
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajb11_457
mm39_Chr. Position ID:
chr16|22684203|22687953|+
Gene name:
Dnajb11
Transcript:
ENSMUST00000004574.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,1466,3257,3667
Genomic length:
3750
Exon/intron sizes in nt:
98,133,143,83
Flanking exon/introns:
chr16:22681448-22684203|chr16:22687953-22688165
Splice length:
457
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTCTGTCAGATAGTGAAAAACGAAAACAGTACGATACTTACGGTGAAGAAGGCTTGAAAGATGGCCATCAGAGCTCTCATGGGGACATTTTTTCACACTTCTTTGGAGACTTTGGCTTCATGTTTGGAGGAACCCCTCGTCAGCAGGACAGGAATATTCCAAGAGGAAGTGATATCATCGTAGATCTAGAAGTCACTCTGGAAGAAGTGTACGCAGGAAATTTTGTGGAAGTAGTTAGAAACAAGCCTGTGGCCAGGCAGGCTCCTGGCAAACGGAAATGCAACTGTCGGCAAGAGATGAGAACCACACAGCTGGGACCGGGACGCTTCCAAATGACCCAGGAAGTGGTTTGTGACGAGTGCCCTAATGTCAAATTAGTGAATGAAGAACGAACACTAGAAGTGGAAATAGAGCCTGGGGTGCGAGATGGCATGGAGTACCCCTTTATTGGAGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAAATAGAGCCTGGGGTGC
60.47
TGTCCCCATGAGAGCTCTGA
59.96
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAAATAGAGCCTGGGGTGCG
60.82
TGTCCCCATGAGAGCTCTGA
59.96
140
PCR template sequence:
GAGTGCCCTAATGTCAAATTAGTGAATGAAGAACGAACACTAGAAGTGGAAATAGAGCCTGGGGTGCGAGATGGCATGGAGTACCCCTTTATTGGAGAAGGTTCTGTCAGATAGTGAAAAACGAAAACAGTACGATACTTACGGTGAAGAAGGCTTGAAAGATGGCCATCAGAGCTCTCATGGGGACATTTTTTCACACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-122-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTTATTGGAGAAGGTTCTGTCAGATA
siRNA sets
ATCTGACAGAACCTTCTCC, TATCTGACAGAACCTTCTC, TCTGACAGAACCTTCTCCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJB11_457_ORF_1
0.9072
0.260927432
0.730375613
486
ORF sequence:
ATGGCATGGAGTACCCCTTTATTGGAGAAGGTTCTGTCAGATAGTGAAAAACGAAAACAGTACGATACTTACGGTGAAGAAGGCTTGAAAGATGGCCATCAGAGCTCTCATGGGGACATTTTTTCACACTTCTTTGGAGACTTTGGCTTCATGTTTGGAGGAACCCCTCGTCAGCAGGACAGGAATATTCCAAGAGGAAGTGATATCATCGTAGATCTAGAAGTCACTCTGGAAGAAGTGTACGCAGGAAATTTTGTGGAAGTAGTTAGAAACAAGCCTGTGGCCAGGCAGGCTCCTGGCAAACGGAAATGCAACTGTCGGCAAGAGATGAGAACCACACAGCTGGGACCGGGACGCTTCCAAATGACCCAGGAAGTGGTTTGTGACGAGTGCCCTAATGTCAAATTAGTGAATGAAGAACGAACACTAGAAGTGGAAATAGAGCCTGGGGTGCGAGATGGCATGGAGTACCCCTTTATTGGAGAA
Peptide sequence:
MAWSTPLLEKVLSDSEKRKQYDTYGEEGLKDGHQSSHGDIFSHFFGDFGFMFGGTPRQQDRNIPRGSDIIVDLEVTLEEVYAGNFVEVVRNKPVARQAPGKRKCNCRQEMRTTQLGPGRFQMTQEVVCDECPNVKLVNEERTLEVEIEPGVRDGMEYPFIGE
IRESfinder result
IRESfinder score
0.39602344
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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