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mmu_circRbmx_432
Basic information of circular RNA
PanCircBase ID:
mmu_circRbmx_432
mm39_Chr. Position ID:
chrX|56434778|56436738|-
Gene name:
Rbmx
Transcript:
ENSMUST00000140384.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
5,4,3
Exon/intron offsets:
0,645,1853
Genomic length:
1960
Exon/intron sizes in nt:
15,31,72,107
Flanking exon/introns:
chrX:56434219-56434778|chrX:56436738-56436926
Splice length:
432
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTCTTTTGATGAAGGACCGAGAAACGAATAAGTCAAGAGGATTCGCTTTTGTCACTTTTGAAAGCCCAGCAGATGCAAAGGATGCTGCCAGAGACATGAATGGAAAGTCCTTAGATGGGAAAGCCATCAAGGTGGAGCAAGCCACCAAACCATCATTTGAAAGTGGTAGACGTGGACTACCCCCACCTCCAAGAAGCAGAGGCCCTCCCAGAGGTCTTCGAGGAGGAAGAGGAGGAAGTGGAGGAACCAGAGGACCCCCCTCCCGGGGAGGACACATGGATGATGGTGGCTACTCCATGAATTTTACCATGAGTTCTTCCAGAGGACCTCTGCCAGTAAAACGAGGACCACCACCACGAAGTGGAGGTCCTCCTCCTAAAAGATCAGCACCTTCTGGACCAGTTCGTAGCAGCAGTGGACTGGGAGGAAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCACCTTCTGGACCAGTT
59.89
TCATGTCTCTGGCAGCATCC
59.82
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCACCTTCTGGACCAGTT
59.89
CATGTCTCTGGCAGCATCCT
59.82
146
PCR template sequence:
CCAGTAAAACGAGGACCACCACCACGAAGTGGAGGTCCTCCTCCTAAAAGATCAGCACCTTCTGGACCAGTTCGTAGCAGCAGTGGACTGGGAGGAAGAGTTCTTTTGATGAAGGACCGAGAAACGAATAAGTCAAGAGGATTCGCTTTTGTCACTTTTGAAAGCCCAGCAGATGCAAAGGATGCTGCCAGAGACATGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-135a-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
CTGGGAGGAAGAGTTCTTTTGATGAA
siRNA sets
TCATCAAAAGAACTCTTCC, TTCATCAAAAGAACTCTTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBMX_432_ORF_1
1.2741
0.109974934
0.976470482
855
ORF sequence:
ATGAAGGACCGAGAAACGAATAAGTCAAGAGGATTCGCTTTTGTCACTTTTGAAAGCCCAGCAGATGCAAAGGATGCTGCCAGAGACATGAATGGAAAGTCCTTAGATGGGAAAGCCATCAAGGTGGAGCAAGCCACCAAACCATCATTTGAAAGTGGTAGACGTGGACTACCCCCACCTCCAAGAAGCAGAGGCCCTCCCAGAGGTCTTCGAGGAGGAAGAGGAGGAAGTGGAGGAACCAGAGGACCCCCCTCCCGGGGAGGACACATGGATGATGGTGGCTACTCCATGAATTTTACCATGAGTTCTTCCAGAGGACCTCTGCCAGTAAAACGAGGACCACCACCACGAAGTGGAGGTCCTCCTCCTAAAAGATCAGCACCTTCTGGACCAGTTCGTAGCAGCAGTGGACTGGGAGGAAGAGTTCTTTTGATGAAGGACCGAGAAACGAATAAGTCAAGAGGATTCGCTTTTGTCACTTTTGAAAGCCCAGCAGATGCAAAGGATGCTGCCAGAGACATGAATGGAAAGTCCTTAGATGGGAAAGCCATCAAGGTGGAGCAAGCCACCAAACCATCATTTGAAAGTGGTAGACGTGGACTACCCCCACCTCCAAGAAGCAGAGGCCCTCCCAGAGGTCTTCGAGGAGGAAGAGGAGGAAGTGGAGGAACCAGAGGACCCCCCTCCCGGGGAGGACACATGGATGATGGTGGCTACTCCATGAATTTTACCATGAGTTCTTCCAGAGGACCTCTGCCAGTAAAACGAGGACCACCACCACGAAGTGGAGGTCCTCCTCCTAAAAGATCAGCACCTTCTGGACCAGTTCGTAGCAGCAGTGGACTGGGAGGAAGA
Peptide sequence:
MKDRETNKSRGFAFVTFESPADAKDAARDMNGKSLDGKAIKVEQATKPSFESGRRGLPPPPRSRGPPRGLRGGRGGSGGTRGPPSRGGHMDDGGYSMNFTMSSSRGPLPVKRGPPPRSGGPPPKRSAPSGPVRSSSGLGGRVLLMKDRETNKSRGFAFVTFESPADAKDAARDMNGKSLDGKAIKVEQATKPSFESGRRGLPPPPRSRGPPRGLRGGRGGSGGTRGPPSRGGHMDDGGYSMNFTMSSSRGPLPVKRGPPPRSGGPPPKRSAPSGPVRSSSGLGGR
IRESfinder result
IRESfinder score
0.453104341
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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