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mmu_ciGtf3a_540
Basic information of circular RNA
PanCircBase ID:
mmu_ciGtf3a_540
mm39_Chr. Position ID:
chr5|146890117|146890657|+
Gene name:
Gtf3a
Transcript:
ENSMUST00000146511.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
6
Exon/intron offsets:
0
Genomic length:
540
Exon/intron sizes in nt:
540
Flanking exon/introns:
chr5:146890117-146890657
Splice length:
540
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGGTAGGCAGGAGCTGTGGAAGCGCATCGGCCCTGGGGAGAGCCCGGTGTGCTCTGAACCCCGGGGAGCCCATGGTGTGTGTGCTCTGAGCTCTGGGGAGTGCATGGTGTACTCTGAGAGAGTGAGATACCCACTTGCGCTGTAAAGGAAGGGGGCTCTGCATCGAGTTCAGGGTAGTGCTGGCTTCCTGGGCTGTGACAGTCGAGGGAGCCCTGCAGGCCTCAGAGCTGGTGCGGCTGTGCCCGGGTGTTCGTGAGGCCCTGCAGGACTTAGCAGATGCTACTGTGTCAGAGGGTAAAGGTAGATGCTATGAGGGCATACTTCCTCGTGCTCAGTTATCACACCGAGGACGCCTGCTCCTTGACAGGCGAGGACTCAGGATGTTGGGAGCCATGAGTGAACTTGAGGAATTTGAAACCAGCATAGCAGTGAGACAAGCTGACATTTCCCATGTGAAGTCCCCAGATTGTGTGTAGTCATAGGACCAGACGGGTTACTCATGGGACGCTGGTTACACGTGTGTGTTTCTCCTCCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGACGGGTTACTCATGGG
59.82
CAGAGCTCAGAGCACACACA
59.97
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGACGGGTTACTCATGGG
59.82
AGAGCTCAGAGCACACACAC
59.97
150
PCR template sequence:
GCTGACATTTCCCATGTGAAGTCCCCAGATTGTGTGTAGTCATAGGACCAGACGGGTTACTCATGGGACGCTGGTTACACGTGTGTGTTTCTCCTCCCAGGTAAGGTAGGCAGGAGCTGTGGAAGCGCATCGGCCCTGGGGAGAGCCCGGTGTGCTCTGAACCCCGGGGAGCCCATGGTGTGTGTGCTCTGAGCTCTGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-431-5p(1), mmu-miR-494-3p(1), mmu-miR-29b-1-5p(1), mmu-miR-666-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-1199-5p(1), mmu-miR-697(1)
siRNAs for circular RNA silencing
Junction sequence
TTTCTCCTCCCAGGTAAGGTAGGCAG
siRNA sets
NA
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
0.447358943
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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