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mmu_circRbbp8_636
Basic information of circular RNA
PanCircBase ID:
mmu_circRbbp8_636
mm39_Chr. Position ID:
chr18|11855660|11871726|+
Gene name:
Rbbp8
Transcript:
ENSMUST00000115861.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
12,13,14,15,16,17
Exon/intron offsets:
0,2803,4569,9586,11872,15969
Genomic length:
16066
Exon/intron sizes in nt:
127,89,112,141,70,97
Flanking exon/introns:
chr18:11855582-11855660|chr18:11871726-11873982
Splice length:
636
Other database IDs:
circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GGTACTGGTTCTCTTGTGCCAACAAAAGTAAAGAGCAGAGCAGTCCATGGAGGATGTGAGCTTGCATCAGTTCTTCAGTTAAACCCCTGTAGAGTTGCTAAAACAAAGGCTCTGCCAAGCAACCAAGATACGTCCTTTGAAAATATCCAGTGGAGTGTAGACCCAGGAGCAGACCTTTCTCAGTATAAAATGGATGTTACTGTAATAGATACAAAGGATAGCAGTCACTCACGATTAGGAGGAGAAACAGTGGACATGGACTGTACATTGGTCAGTGAAACCGTGCTTTTAAAAATGAAGAAACAAGAGCAAAAAGAAAGAAGTCCAAATGGAGACATAAAAATGAATGATAGCCTAGAAGATATGTTTGATCGGACAACACATGAAGAGTATGAGTCCTGTTTGGCAGATAGCTTCTCCCAGGTACCAGATGAGGAAGAACTGCCTGACACCACAAAGAAAACAAACATACCTGCTGATAAACAAGATGGAGTCAAACAGAAAGCATTTGTGGGGCCATATTTTAAAGATAAGGAGAGAGAAACTAGCATACAGAATTTTCCTCATATTGAGGTAGTTCGGAAAAAAGAAGAGAGAAGGAAATTGCTTGGGCACACATGTAAAGAATGTGAAATT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGAAGGAAATTGCTTGGGC
59.83
AGCAACTCTACAGGGGTTTAACT
59.35
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAGAAGGAAATTGCTTGGGC
58.83
AGCAACTCTACAGGGGTTTAACT
59.35
143
PCR template sequence:
GAGAGAAACTAGCATACAGAATTTTCCTCATATTGAGGTAGTTCGGAAAAAAGAAGAGAGAAGGAAATTGCTTGGGCACACATGTAAAGAATGTGAAATTGGTACTGGTTCTCTTGTGCCAACAAAAGTAAAGAGCAGAGCAGTCCATGGAGGATGTGAGCTTGCATCAGTTCTTCAGTTAAACCCCTGTAGAGTTGCTA
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-136-5p(1), mmu-miR-802-5p(1), mmu-miR-300-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAATGTGAAATTGGTACTGGTTCTC
siRNA sets
AACCAGTACCAATTTCACA, GAACCAGTACCAATTTCAC, AGTACCAATTTCACATTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRBBP8_636_ORF_1
1.0084
0.060002035
0.99065045
1083
ORF sequence:
ATGGATGTTACTGTAATAGATACAAAGGATAGCAGTCACTCACGATTAGGAGGAGAAACAGTGGACATGGACTGTACATTGGTCAGTGAAACCGTGCTTTTAAAAATGAAGAAACAAGAGCAAAAAGAAAGAAGTCCAAATGGAGACATAAAAATGAATGATAGCCTAGAAGATATGTTTGATCGGACAACACATGAAGAGTATGAGTCCTGTTTGGCAGATAGCTTCTCCCAGGTACCAGATGAGGAAGAACTGCCTGACACCACAAAGAAAACAAACATACCTGCTGATAAACAAGATGGAGTCAAACAGAAAGCATTTGTGGGGCCATATTTTAAAGATAAGGAGAGAGAAACTAGCATACAGAATTTTCCTCATATTGAGGTAGTTCGGAAAAAAGAAGAGAGAAGGAAATTGCTTGGGCACACATGTAAAGAATGTGAAATTGGTACTGGTTCTCTTGTGCCAACAAAAGTAAAGAGCAGAGCAGTCCATGGAGGATGTGAGCTTGCATCAGTTCTTCAGTTAAACCCCTGTAGAGTTGCTAAAACAAAGGCTCTGCCAAGCAACCAAGATACGTCCTTTGAAAATATCCAGTGGAGTGTAGACCCAGGAGCAGACCTTTCTCAGTATAAAATGGATGTTACTGTAATAGATACAAAGGATAGCAGTCACTCACGATTAGGAGGAGAAACAGTGGACATGGACTGTACATTGGTCAGTGAAACCGTGCTTTTAAAAATGAAGAAACAAGAGCAAAAAGAAAGAAGTCCAAATGGAGACATAAAAATGAATGATAGCCTAGAAGATATGTTTGATCGGACAACACATGAAGAGTATGAGTCCTGTTTGGCAGATAGCTTCTCCCAGGTACCAGATGAGGAAGAACTGCCTGACACCACAAAGAAAACAAACATACCTGCTGATAAACAAGATGGAGTCAAACAGAAAGCATTTGTGGGGCCATATTTTAAAGATAAGGAGAGAGAAACTAGCATACAGAATTTTCCTCATATTGAGGTAGTTCGGAAAAAAGAAGAGAGAAGGAAATTGCTTGGGCACACATGTAAAGAATGTGAAATT
Peptide sequence:
MDVTVIDTKDSSHSRLGGETVDMDCTLVSETVLLKMKKQEQKERSPNGDIKMNDSLEDMFDRTTHEEYESCLADSFSQVPDEEELPDTTKKTNIPADKQDGVKQKAFVGPYFKDKERETSIQNFPHIEVVRKKEERRKLLGHTCKECEIGTGSLVPTKVKSRAVHGGCELASVLQLNPCRVAKTKALPSNQDTSFENIQWSVDPGADLSQYKMDVTVIDTKDSSHSRLGGETVDMDCTLVSETVLLKMKKQEQKERSPNGDIKMNDSLEDMFDRTTHEEYESCLADSFSQVPDEEELPDTTKKTNIPADKQDGVKQKAFVGPYFKDKERETSIQNFPHIEVVRKKEERRKLLGHTCKECEI
IRESfinder result
IRESfinder score
0.651787297
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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