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mmu_circMms19_501
Basic information of circular RNA
PanCircBase ID:
mmu_circMms19_501
mm39_Chr. Position ID:
chr19|41944947|41951909|-
Gene name:
Mms19
Transcript:
ENSMUST00000167927.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
11,10,9,8,7,6
Exon/intron offsets:
0,632,1349,6291,6441,6892
Genomic length:
6962
Exon/intron sizes in nt:
78,75,87,62,129,70
Flanking exon/introns:
chr19:41944400-41944947|chr19:41951909-41952301
Splice length:
501
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TCCCTGCTACAGGTGGACCGCCATACTGTCTTCAGCATCATCACTAACTTCATGCGATCACGAGAAGAAGAGCTGAAGGGTCTGGGAGCTGACTTCACATTTGGCTTCATCCAGGTGATGGATGGGGAGAAGGATCCCCGTAATCTCCTGCTGGCTTTCCGCATCGTCCATGACCTCATCTCCAAGGACTACAGTCTGGGACCTTTCGTGGAAGAGTTATTTGAAGTGACATCTTGTTATTTCCCTATTGATTTTACCCCTCCGCCTAACGATCCTTATGGCATCCAGAGAGAGGATCTCATCCTGAGTCTCCGTGCTGTGCTGGCGTCTACACCGCGCTTTGCCGAGTTCTTACTGCCTCTGCTAATTGAGAAAGTGGATTCGGAGATTTTAAGTGCCAAGCTGGATTCTCTGCAAACTCTGAATGCTTGCTGTGCTGTGTATGGACAGAAGGAGCTGAAGGACTTCCTGCCCAGCCTTTGGGCTTCCATCCGTAGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTGCTGTGCTGTGTATGG
59.83
GTGAAGTCAGCTCCCAGACC
60.04
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCTTGCTGTGCTGTGTATGG
59.83
TCCCAGACCCTTCAGCTCTT
60.18
162
PCR template sequence:
GCTGGATTCTCTGCAAACTCTGAATGCTTGCTGTGCTGTGTATGGACAGAAGGAGCTGAAGGACTTCCTGCCCAGCCTTTGGGCTTCCATCCGTAGAGAGTCCCTGCTACAGGTGGACCGCCATACTGTCTTCAGCATCATCACTAACTTCATGCGATCACGAGAAGAAGAGCTGAAGGGTCTGGGAGCTGACTTCACAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-96-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCCGTAGAGAGTCCCTGCTACAGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCMMS19_501_ORF_1
1.2318
0.394800585
0.995934229
951
ORF sequence:
ATGCGATCACGAGAAGAAGAGCTGAAGGGTCTGGGAGCTGACTTCACATTTGGCTTCATCCAGGTGATGGATGGGGAGAAGGATCCCCGTAATCTCCTGCTGGCTTTCCGCATCGTCCATGACCTCATCTCCAAGGACTACAGTCTGGGACCTTTCGTGGAAGAGTTATTTGAAGTGACATCTTGTTATTTCCCTATTGATTTTACCCCTCCGCCTAACGATCCTTATGGCATCCAGAGAGAGGATCTCATCCTGAGTCTCCGTGCTGTGCTGGCGTCTACACCGCGCTTTGCCGAGTTCTTACTGCCTCTGCTAATTGAGAAAGTGGATTCGGAGATTTTAAGTGCCAAGCTGGATTCTCTGCAAACTCTGAATGCTTGCTGTGCTGTGTATGGACAGAAGGAGCTGAAGGACTTCCTGCCCAGCCTTTGGGCTTCCATCCGTAGAGAGTCCCTGCTACAGGTGGACCGCCATACTGTCTTCAGCATCATCACTAACTTCATGCGATCACGAGAAGAAGAGCTGAAGGGTCTGGGAGCTGACTTCACATTTGGCTTCATCCAGGTGATGGATGGGGAGAAGGATCCCCGTAATCTCCTGCTGGCTTTCCGCATCGTCCATGACCTCATCTCCAAGGACTACAGTCTGGGACCTTTCGTGGAAGAGTTATTTGAAGTGACATCTTGTTATTTCCCTATTGATTTTACCCCTCCGCCTAACGATCCTTATGGCATCCAGAGAGAGGATCTCATCCTGAGTCTCCGTGCTGTGCTGGCGTCTACACCGCGCTTTGCCGAGTTCTTACTGCCTCTGCTAATTGAGAAAGTGGATTCGGAGATTTTAAGTGCCAAGCTGGATTCTCTGCAAACTCTGAATGCTTGCTGTGCTGTGTATGGACAGAAGGAGCTGAAGGACTTCCTGCCCAGCCTTTGGGCTTCCATCCGTAGAGAG
Peptide sequence:
MRSREEELKGLGADFTFGFIQVMDGEKDPRNLLLAFRIVHDLISKDYSLGPFVEELFEVTSCYFPIDFTPPPNDPYGIQREDLILSLRAVLASTPRFAEFLLPLLIEKVDSEILSAKLDSLQTLNACCAVYGQKELKDFLPSLWASIRRESLLQVDRHTVFSIITNFMRSREEELKGLGADFTFGFIQVMDGEKDPRNLLLAFRIVHDLISKDYSLGPFVEELFEVTSCYFPIDFTPPPNDPYGIQREDLILSLRAVLASTPRFAEFLLPLLIEKVDSEILSAKLDSLQTLNACCAVYGQKELKDFLPSLWASIRRE
IRESfinder result
IRESfinder score
0.602504325
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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