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mmu_ciGpd2_569
Basic information of circular RNA
PanCircBase ID:
mmu_ciGpd2_569
mm39_Chr. Position ID:
chr2|57245947|57246516|+
Gene name:
Gpd2
Transcript:
ENSMUST00000169687.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
11
Exon/intron offsets:
0
Genomic length:
569
Exon/intron sizes in nt:
569
Flanking exon/introns:
chr2:57245947-57246530
Splice length:
569
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTTCGTGGACATTGCCACACTACCTTGCCTTGCTGTTGTTGAGATCTCAGTCAGTGGCTGTGGTGTGACCTTCCTGATTTAGGGTGACCTTTTCCTGGGCTTGCTACAAAAAAAAAAAAAAAAAGAAACCAAACCAAACCAAACCAAGCAAAAAAAACCCATAAAACCAGAAAAGACGATCCAACTTTATTATAGTTGTCTAAAAATTTAAGGATGCACGTTTGGTTTTCTTTTGAAATCTCAAATTTACTCAGTTTGCTTCTAGTAGACAAAATTTCCCCAGCCTCTTTGCATCTTGAGTGCTCTTCAGGAGTGACATCAAGAAGAAAATGGAGCTGAAGCGCCATCCGTCAGTCACTGAGCTGCTGCGAGCTGCTGCTACTCCGATGCTGAGTCAGTGCTGGCCTAAGCATTCAAAGCCCAAGTGGTTTCCTCCCACAGAGCCTGGCCCTAATACTCCCTGAGAGCTATTCGTTACCGGCTGTGGGAAAACTGACAGTTCGAGAGCACACTGTTGCTTTCTTCCGTATCTTAAAGGACCTACCCCTCAGAATGCCTGTCTAATGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TACCGGCTGTGGGAAAACTG
60.25
CACCACAGCCACTGACTGAG
60.6
159
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TACCGGCTGTGGGAAAACTG
60.25
CCACAGCCACTGACTGAGAT
59.39
157
PCR template sequence:
ATTCGTTACCGGCTGTGGGAAAACTGACAGTTCGAGAGCACACTGTTGCTTTCTTCCGTATCTTAAAGGACCTACCCCTCAGAATGCCTGTCTAATGCAGGTTCGTGGACATTGCCACACTACCTTGCCTTGCTGTTGTTGAGATCTCAGTCAGTGGCTGTGGTGTGACCTTCCTGATTTAGGGTGACCTTTTCCTGGGC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-223-3p(1), mmu-miR-196a-5p(1), mmu-miR-136-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-129-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTGTCTAATGCAGGTTCGTGGACATT
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
0.72789824
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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