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mmu_circRbm17_306
Basic information of circular RNA
PanCircBase ID:
mmu_circRbm17_306
mm39_Chr. Position ID:
chr2|11593738|11595641|-
Gene name:
Rbm17
Transcript:
ENSMUST00000040314.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
8,7
Exon/intron offsets:
0,1761
Genomic length:
1903
Exon/intron sizes in nt:
1,64,142
Flanking exon/introns:
chr2:11592605-11593738|chr2:11595641-11598218
Splice length:
306
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TACCCCGCGATTTTCCTTATGAAGAGGACTCAAGACCGAGATCACAGTCTTCCAAAGCTGCTATTCCTCCCCCCGTGTATGAGGAGCCGGACAGACCAAGATCTCCAACAGGCCCCAGCAACTCCTTCCTTGCTAACATGGGTGGCACAGTGGCTCATAAGATTATGCAGAAGTATGGCTTCCGGGAAGGTCAGGGACTGGGGAAACACGAGCAAGGGCTGAGTACTGCATTGTCTGTGGAGAAGACCAGCAAGCGTGGCGGCAAGATCATTGTGGGGGATGCGACAGAGAAGGGCGAGGCTCAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAAGATCATTGTGGGGGA
60.03
TCTGTCCGGCTCCTCATACA
60.03
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGCAAGATCATTGTGGGGGA
60.03
CTGTCCGGCTCCTCATACAC
59.9
140
PCR template sequence:
CACGAGCAAGGGCTGAGTACTGCATTGTCTGTGGAGAAGACCAGCAAGCGTGGCGGCAAGATCATTGTGGGGGATGCGACAGAGAAGGGCGAGGCTCAGGTACCCCGCGATTTTCCTTATGAAGAGGACTCAAGACCGAGATCACAGTCTTCCAAAGCTGCTATTCCTCCCCCCGTGTATGAGGAGCCGGACAGACCAAG
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-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-324-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCGAGGCTCAGGTACCCCGCGATTT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBM17_306_ORF_1
1.0933
0.365275584
0.844186555
474
ORF sequence:
ATGGGTGGCACAGTGGCTCATAAGATTATGCAGAAGTATGGCTTCCGGGAAGGTCAGGGACTGGGGAAACACGAGCAAGGGCTGAGTACTGCATTGTCTGTGGAGAAGACCAGCAAGCGTGGCGGCAAGATCATTGTGGGGGATGCGACAGAGAAGGGCGAGGCTCAGGTACCCCGCGATTTTCCTTATGAAGAGGACTCAAGACCGAGATCACAGTCTTCCAAAGCTGCTATTCCTCCCCCCGTGTATGAGGAGCCGGACAGACCAAGATCTCCAACAGGCCCCAGCAACTCCTTCCTTGCTAACATGGGTGGCACAGTGGCTCATAAGATTATGCAGAAGTATGGCTTCCGGGAAGGTCAGGGACTGGGGAAACACGAGCAAGGGCTGAGTACTGCATTGTCTGTGGAGAAGACCAGCAAGCGTGGCGGCAAGATCATTGTGGGGGATGCGACAGAGAAGGGCGAGGCTCAG
Peptide sequence:
MGGTVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKGEAQVPRDFPYEEDSRPRSQSSKAAIPPPVYEEPDRPRSPTGPSNSFLANMGGTVAHKIMQKYGFREGQGLGKHEQGLSTALSVEKTSKRGGKIIVGDATEKGEAQ
IRESfinder result
IRESfinder score
0.356061392
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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