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mmu_circTmem116_243
Basic information of circular RNA
PanCircBase ID:
mmu_circTmem116_243
mm39_Chr. Position ID:
chr5|121601849|121606048|+
Gene name:
Tmem116
Transcript:
ENSMUST00000111795.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,1012,4067
Genomic length:
4199
Exon/intron sizes in nt:
47,64,132
Flanking exon/introns:
chr5:121590433-121601849|chr5:121606048-121620395
Splice length:
243
Other database IDs:
circAtlas: mmu-Tmem116_0002
CIRCpedia: HSA_CIRCpedia_6773
Human Ortholog IDs:
Mature spliced Sequence:
CTTTTTCCTGCAATACAGTGGATACAGTTTGCTGTGGCTACTCTGAGTGTTATAGGCTCCAGTTCACTCCTCACCTACATCGCGTTCCAGAGCCCACAGAAGTCTGCAGAGATAAAGCCACTCTTGTATCTGAGCTTCTCTGACCTGCTCCTGGGAATTTGCTGGCTCGTAAAGGCACTTCTCTATGGAACTGCAGCAGCCCACAAGGACAGCATCTGCTATAACCTACAGACCGTGGGGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTATGGAACTGCAGCAGCC
60.11
TGGAACGCGATGTAGGTGAG
59.83
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCTATGGAACTGCAGCAGCC
60.11
CTGGAACGCGATGTAGGTGA
59.83
152
PCR template sequence:
CCTGCTCCTGGGAATTTGCTGGCTCGTAAAGGCACTTCTCTATGGAACTGCAGCAGCCCACAAGGACAGCATCTGCTATAACCTACAGACCGTGGGGGAGCTTTTTCCTGCAATACAGTGGATACAGTTTGCTGTGGCTACTCTGAGTGTTATAGGCTCCAGTTCACTCCTCACCTACATCGCGTTCCAGAGCCCACAGA
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-381-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACCGTGGGGGAGCTTTTTCCTGCAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTMEM116_243_ORF_1
0.9858
-0.132487506
0.03897056
105
ORF sequence:
ATGGAACTGCAGCAGCCCACAAGGACAGCATCTGCTATAACCTACAGACCGTGGGGGAGCTTTTTCCTGCAATACAGTGGATACAGTTTGCTGTGGCTACTCTGA
Peptide sequence:
MELQQPTRTASAITYRPWGSFFLQYSGYSLLWLL
IRESfinder result
IRESfinder score
0.71407757
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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