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mmu_circGanc_480
Basic information of circular RNA
PanCircBase ID:
mmu_circGanc_480
mm39_Chr. Position ID:
chr2|120236746|120252685|+
Gene name:
Ganc
Transcript:
ENSMUST00000043755.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,5169,13092,15759
Genomic length:
15939
Exon/intron sizes in nt:
63,10,91,28,180
Flanking exon/introns:
chr2:120235889-120236746|chr2:120252685-120254179
Splice length:
480
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TGTTGAAGATGAAGCAGTGGATAAAACTATTTTCAAAGACTGTGGCAAGATTGCATTCTACAGGCGGCAGAAACAGCAGCTCACCAAGACTACCACCTACCAGGCTTTGCTAGGCTCAGTCGACACAGAACAGGACAGCACCAGGTTCCAAATCATCAGTGAAGCAACTAAGATTCCTCTCGTGGCTGAAGTTTATGGTATAGAGAAAGACATTTTCAGACTTAAGATCAATGAAGAGACTCCACTGAAACCAAGGTATGAAGTTCCTGACGTCATCAACAGCAAGCTAGGAACTGTCAGGCTGGTCTGCTCAGGGGACACAGGCAGCCTAATACTGACAAATAGAAAAGGAGATCTGAAATGTCACGTCTCAGCAAACCCATTCAAGATCGATTTGCTGTCGAAGAACGAGGCTGTGATCAGCATCAACTCCCTGGGCCAGTTATACTTTGAGCACCTACAGGTTCCTCACAAGCAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCAACTCCCTGGGCCAGTTA
60.47
TGGTAGTCTTGGTGAGCTGC
59.68
150
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATCAGCATCAACTCCCTGGG
59.45
TGGTAGTCTTGGTGAGCTGC
59.68
157
PCR template sequence:
CATTCAAGATCGATTTGCTGTCGAAGAACGAGGCTGTGATCAGCATCAACTCCCTGGGCCAGTTATACTTTGAGCACCTACAGGTTCCTCACAAGCAGAGTGTTGAAGATGAAGCAGTGGATAAAACTATTTTCAAAGACTGTGGCAAGATTGCATTCTACAGGCGGCAGAAACAGCAGCTCACCAAGACTACCACCTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
7
Interacting miRNAs (#binding sites)
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
CTCACAAGCAGAGTGTTGAAGATGAA
siRNA sets
CTTCAACACTCTGCTTGTG, TCTTCAACACTCTGCTTGT, TTCATCTTCAACACTCTGC
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
0.54236923
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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