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mmu_circGanc_354
Basic information of circular RNA
PanCircBase ID:
mmu_circGanc_354
mm39_Chr. Position ID:
chr2|120249838|120254225|+
Gene name:
Ganc
Transcript:
ENSMUST00000043755.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,2667,4341
Genomic length:
4387
Exon/intron sizes in nt:
128,180,46
Flanking exon/introns:
chr2:120242024-120249838|chr2:120254225-120258210
Splice length:
354
Other database IDs:
circBase: hsa_circ_0034804, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_82948
Human Ortholog IDs:
Mature spliced Sequence:
ATTCCTCTCGTGGCTGAAGTTTATGGTATAGAGAAAGACATTTTCAGACTTAAGATCAATGAAGAGACTCCACTGAAACCAAGGTATGAAGTTCCTGACGTCATCAACAGCAAGCTAGGAACTGTCAGGCTGGTCTGCTCAGGGGACACAGGCAGCCTAATACTGACAAATAGAAAAGGAGATCTGAAATGTCACGTCTCAGCAAACCCATTCAAGATCGATTTGCTGTCGAAGAACGAGGCTGTGATCAGCATCAACTCCCTGGGCCAGTTATACTTTGAGCACCTACAGGTTCCTCACAAGCAGAGAGCTACCAAAGGAAATGGGCAAAATACACCAGCTGCCACCTCTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGGTTCCTCACAAGCAGAG
59.93
ACCTTGGTTTCAGTGGAGTCTC
59.9
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGGTTCCTCACAAGCAGAG
59.93
ACCTTGGTTTCAGTGGAGTCT
58.87
152
PCR template sequence:
CAACTCCCTGGGCCAGTTATACTTTGAGCACCTACAGGTTCCTCACAAGCAGAGAGCTACCAAAGGAAATGGGCAAAATACACCAGCTGCCACCTCTCAGATTCCTCTCGTGGCTGAAGTTTATGGTATAGAGAAAGACATTTTCAGACTTAAGATCAATGAAGAGACTCCACTGAAACCAAGGTATGAAGTTCCTGACG
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-9-5p(1), mmu-miR-125b-5p(1), mmu-miR-351-5p(1), mmu-miR-125a-5p(1), mmu-miR-541-5p(1), mmu-miR-29b-2-5p(1), mmu-miR-673-5p(1), mmu-miR-193b-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCCACCTCTCAGATTCCTCTCGTGG
siRNA sets
AGAGGAATCTGAGAGGTGG, ACGAGAGGAATCTGAGAGG, AGGAATCTGAGAGGTGGCA
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
0.520048052
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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