top of page
mmu_circCar10_218
Basic information of circular RNA
PanCircBase ID:
mmu_circCar10_218
mm39_Chr. Position ID:
chr11|93075907|93195473|+
Gene name:
Car10
Transcript:
ENSMUST00000107859.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,4
Exon/intron offsets:
0,119423
Genomic length:
119566
Exon/intron sizes in nt:
75,143
Flanking exon/introns:
chr11:92991112-93075907|chr11:93195473-93259265
Splice length:
218
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
CTCAACAGAATTCACCAAAAATCCATGAAGGCTGGTGGGCATACAAGGAGGTGGTCCAGGGAAGCTTTGTTCCAGTTCCTTCTTTCTGGGGATTGGTGAACTCAGCTTGGAATCTTTGCTCTGTGGGGAAGCGTCAGTCCCCTGTCAACATAGAAACCAGTCACATGATCTTCGACCCCTTTCTGACACCTCTTCGCATCAACACTGGGGGCAGGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCAGTCCCCTGTCAACAT
59.68
GACCACCTCCTTGTATGCCC
60.11
143
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGTCAGTCCCCTGTCAACAT
59.68
GGACCACCTCCTTGTATGCC
60.11
144
PCR template sequence:
CTCTGTGGGGAAGCGTCAGTCCCCTGTCAACATAGAAACCAGTCACATGATCTTCGACCCCTTTCTGACACCTCTTCGCATCAACACTGGGGGCAGGAAGCTCAACAGAATTCACCAAAAATCCATGAAGGCTGGTGGGCATACAAGGAGGTGGTCCAGGGAAGCTTTGTTCCAGTTCCTTCTTTCTGGGGATTGGTGAA
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-134-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGGGCAGGAAGCTCAACAGAATTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCAR10_218_ORF_1
0.8487
0.012578885
0.074501687
153
ORF sequence:
ATGATCTTCGACCCCTTTCTGACACCTCTTCGCATCAACACTGGGGGCAGGAAGCTCAACAGAATTCACCAAAAATCCATGAAGGCTGGTGGGCATACAAGGAGGTGGTCCAGGGAAGCTTTGTTCCAGTTCCTTCTTTCTGGGGATTGGTGA
Peptide sequence:
MIFDPFLTPLRINTGGRKLNRIHQKSMKAGGHTRRWSREALFQFLLSGDW
IRESfinder result
IRESfinder score
0.784052373
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page