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mmu_circGm7854_389
Basic information of circular RNA
PanCircBase ID:
mmu_circGm7854_389
mm39_Chr. Position ID:
chr5|43312090|43348747|-
Gene name:
Gm7854
Transcript:
ENSMUST00000187911.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,11171,32785,36546
Genomic length:
36657
Exon/intron sizes in nt:
9,51,10,73,111
Flanking exon/introns:
chr5:43309483-43312090|chr5:43348747-43392294
Splice length:
389
Other database IDs:
CIRCpedia: MMU_CIRCpedia_211789, circAtlas: mmu-Gm7854_0011
Human Ortholog IDs:
Mature spliced Sequence:
GATGATGCCCTCCAGGTCTATCCATTTGCCTAGGAACCAAGAAGTCTTAATAACTGTTTTGGTGATTGGGGCCAGCAGAAACCTTCTTCCTGACATTCTTCTAAGTGACAGTTCCTGCTTCCAGCTTCCTGCCAAGACTTCCTTTAATGATGGACTGTAACCTGAAGCTCAAACCCCAAATGACGTTCCTGCTCTGTTGCCTGTACCCTGGATTGCTCACCACCTGAGCCTACCTGCCCTTGTGGGGTTGGAGGTGAGGTGTCACAAAGTCATCAACACAGACTCTGGAAGCAGAGAAGGCTCCTGGAAGGAACTGCTCAGCTGGGGACTACACCTTCTTTTTGTTTTGGTACAGAGAGAGACCAGCTGACTGGTTTTCAGAATGAAAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAGGAACTGCTCAGCTG
59.96
GGCCCCAATCACCAAAACAG
59.68
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGAAGGAACTGCTCAGCTG
59.96
CTGGCCCCAATCACCAAAAC
59.68
160
PCR template sequence:
AGCAGAGAAGGCTCCTGGAAGGAACTGCTCAGCTGGGGACTACACCTTCTTTTTGTTTTGGTACAGAGAGAGACCAGCTGACTGGTTTTCAGAATGAAAAGATGATGCCCTCCAGGTCTATCCATTTGCCTAGGAACCAAGAAGTCTTAATAACTGTTTTGGTGATTGGGGCCAGCAGAAACCTTCTTCCTGACATTCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-384-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCAGAATGAAAAGATGATGCCCTCC
siRNA sets
ATCATCTTTTCATTCTGAA, CATCATCTTTTCATTCTGA
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
0.743157073
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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