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mmu_circDnajb11_141
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajb11_141
mm39_Chr. Position ID:
chr16|22687870|22688223|+
Gene name:
Dnajb11
Transcript:
ENSMUST00000004574.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,295
Genomic length:
353
Exon/intron sizes in nt:
83,58
Flanking exon/introns:
chr16:22687603-22687870|chr16:22688223-22689320
Splice length:
141
Other database IDs:
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_148329
Human Ortholog IDs:
Mature spliced Sequence:
ATTAGTGAATGAAGAACGAACACTAGAAGTGGAAATAGAGCCTGGGGTGCGAGATGGCATGGAGTACCCCTTTATTGGAGAAGGTGAGCCGCATGTGGATGGGGAACCCGGAGACTTACGGTTCCGAATCAAAGTTGTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TATTGGAGAAGGTGAGCCGC
59.82
GGGTACTCCATGCCATCTCG
59.97
138
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TATTGGAGAAGGTGAGCCGC
59.82
TACTCCATGCCATCTCGCAC
59.9
135
PCR template sequence:
TTATTGGAGAAGGTGAGCCGCATGTGGATGGGGAACCCGGAGACTTACGGTTCCGAATCAAAGTTGTCAAATTAGTGAATGAAGAACGAACACTAGAAGTGGAAATAGAGCCTGGGGTGCGAGATGGCATGGAGTACCCC
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
TCAAAGTTGTCAAATTAGTGAATGAA
siRNA sets
TTCATTCACTAATTTGACA, ACTAATTTGACAACTTTGA, TTCACTAATTTGACAACTT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJB11_141_ORF_1
1.2422
0.410198612
0.584067027
222
ORF sequence:
ATGGAGTACCCCTTTATTGGAGAAGGTGAGCCGCATGTGGATGGGGAACCCGGAGACTTACGGTTCCGAATCAAAGTTGTCAAATTAGTGAATGAAGAACGAACACTAGAAGTGGAAATAGAGCCTGGGGTGCGAGATGGCATGGAGTACCCCTTTATTGGAGAAGGTGAGCCGCATGTGGATGGGGAACCCGGAGACTTACGGTTCCGAATCAAAGTTGTC
Peptide sequence:
MEYPFIGEGEPHVDGEPGDLRFRIKVVKLVNEERTLEVEIEPGVRDGMEYPFIGEGEPHVDGEPGDLRFRIKVV
IRESfinder result
IRESfinder score
0.212723915
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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