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mmu_circRanbp3_165
Basic information of circular RNA
PanCircBase ID:
mmu_circRanbp3_165
mm39_Chr. Position ID:
chr17|56993005|57003789|+
Gene name:
Ranbp3
Transcript:
ENSMUST00000232975.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,10596,10712
Genomic length:
10784
Exon/intron sizes in nt:
56,37,72
Flanking exon/introns:
chr17:56980411-56993005|chr17:57003789-57009762
Splice length:
165
Other database IDs:
circAtlas: mmu-Ranbp3_0010
Human Ortholog IDs:
Mature spliced Sequence:
AAAAGCCTGCCGTCGCACCGTCTGTCTTTGTGTTTCAAAAGGACAAAGGACAGAAGAGATCTGCTGGCAGCTCCAGTCCCGAAGCCGGAGAAGATTCTGACCATGAGGATGGAAACTACTGCCCCCCTGTCAAGCGTGAGCGGACATCCTCTCTAACTCACTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGGAAACTACTGCCCCC
60.11
GCTGCCAGCAGATCTCTTCT
59.82
130
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATGGAAACTACTGCCCCC
60.11
AGCTGCCAGCAGATCTCTTC
59.82
131
PCR template sequence:
GCCGGAGAAGATTCTGACCATGAGGATGGAAACTACTGCCCCCCTGTCAAGCGTGAGCGGACATCCTCTCTAACTCACTCAGAAAAGCCTGCCGTCGCACCGTCTGTCTTTGTGTTTCAAAAGGACAAAGGACAGAAGAGATCTGCTGGCAGCTCCAGTCCCGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-140-5p(1), mmu-miR-22-3p(1), mmu-miR-199b-3p(1), mmu-miR-199a-3p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
CTAACTCACTCAGAAAAGCCTGCCGT
siRNA sets
NA
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
0.656490847
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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