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mmu_ciGatad1_147
Basic information of circular RNA
PanCircBase ID:
mmu_ciGatad1_147
mm39_Chr. Position ID:
chr5|3691206|3691353|-
Gene name:
Gatad1
Transcript:
ENSMUST00000140871.2
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
147
Exon/intron sizes in nt:
147
Flanking exon/introns:
chr5:3684030-3691353
Splice length:
147
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATAAAGCCTCAGTTTTAACCCTAGAACACACACATCCCAAAATAAAGCCAGGTTTCCAGTTTCCTTCTATTTATAATATAACAAGATATGCCACACTCATTTCTCTTTATAAACCTTTTTCTCTAAGTTCTTGAGATAGGGTCTC
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCACACTCATTTCTCTTT
55.17
AGGAAACTGGAAACCTGGCT
59.15
124
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCCACACTCATTTCTCTTT
55.17
AGGAAACTGGAAACCTGGCTT
59.78
124
PCR template sequence:
ATAATATAACAAGATATGCCACACTCATTTCTCTTTATAAACCTTTTTCTCTAAGTTCTTGAGATAGGGTCTCGTATAAAGCCTCAGTTTTAACCCTAGAACACACACATCCCAAAATAAAGCCAGGTTTCCAGTTTCCTTCTATT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-340-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAGATAGGGTCTCGTATAAAGCCTCA
siRNA sets
CTTTATACGAGACCCTATC, TTTATACGAGACCCTATCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.942415431
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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