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mmu_circDnajc10_226
Basic information of circular RNA
PanCircBase ID:
mmu_circDnajc10_226
mm39_Chr. Position ID:
chr2|80155338|80156055|+
Gene name:
Dnajc10
Transcript:
ENSMUST00000028392.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,623
Genomic length:
717
Exon/intron sizes in nt:
132,94
Flanking exon/introns:
chr2:80155086-80155338|chr2:80156055-80157001
Splice length:
226
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TGGAGAGAATTTGCTAAAGAAGTGGATGGGTTGCTTCGAATCGGAGCTGTCAACTGTGGTGATGATCGGATGCTCTGCCGAATGAAAGGAGTTAACAGCTACCCCAGCCTCTTCATCTTTAGGTCTGGAATGGCTGCAGTGAAGTACAATGGAGATCGGTCAAAGGAGAGCTTAGTGGCCTTCGCCATGCAGCACGTCAGGAGCACAGTGACAGAGCTGTCAACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAGCTTAGTGGCCTTCG
60.18
GGCAGAGCATCCGATCATCA
59.97
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGAGCTTAGTGGCCTTCG
60.18
TCCTTTCATTCGGCAGAGCA
59.68
152
PCR template sequence:
GGAATGGCTGCAGTGAAGTACAATGGAGATCGGTCAAAGGAGAGCTTAGTGGCCTTCGCCATGCAGCACGTCAGGAGCACAGTGACAGAGCTGTCAACAGTGGAGAGAATTTGCTAAAGAAGTGGATGGGTTGCTTCGAATCGGAGCTGTCAACTGTGGTGATGATCGGATGCTCTGCCGAATGAAAGGAGTTAACAGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-136-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGCTGTCAACAGTGGAGAGAATTTG
siRNA sets
AATTCTCTCCACTGTTGAC, ATTCTCTCCACTGTTGACA, AAATTCTCTCCACTGTTGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCDNAJC10_226_ORF_1
0.977
0.265031485
0.25019309
174
ORF sequence:
ATGCTCTGCCGAATGAAAGGAGTTAACAGCTACCCCAGCCTCTTCATCTTTAGGTCTGGAATGGCTGCAGTGAAGTACAATGGAGATCGGTCAAAGGAGAGCTTAGTGGCCTTCGCCATGCAGCACGTCAGGAGCACAGTGACAGAGCTGTCAACAGTGGAGAGAATTTGCTAA
Peptide sequence:
MLCRMKGVNSYPSLFIFRSGMAAVKYNGDRSKESLVAFAMQHVRSTVTELSTVERIC
IRESfinder result
IRESfinder score
0.392085137
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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