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mmu_circBub1_653
Basic information of circular RNA
PanCircBase ID:
mmu_circBub1_653
mm39_Chr. Position ID:
chr2|127652528|127658067|-
Gene name:
Bub1
Transcript:
ENSMUST00020183811.1
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
6
Exon/intron indexes:
16,15,14,13,12,11
Exon/intron offsets:
0,2339,3220,4029,4230,5480
Genomic length:
5539
Exon/intron sizes in nt:
175,82,97,111,129,59
Flanking exon/introns:
chr2:127650974-127652528|chr2:127658067-127659171
Splice length:
653
Other database IDs:
CIRCpedia: HSA_CIRCpedia_146092
Human Ortholog IDs:
Mature spliced Sequence:
ATGTGTGAATCAAAGTGTTCATGAATTCATGCCACAGTGTGGACCAGAAACAAAAGAAGTGTGTGAAACAAATAAAGTTGCCAGCATTAATGATTTTCATACAACTCCAAACACATCATTGGGAATGGTTCAAGGAACACCATGCAAAGTGCAGCCATCACCAACTGTCCACACCAAGGAAGCATTAGGTTTCATCATGGACATGTTTCAGGCTCCAACACTTCCTGACATTTCTGATGATAAAGATGAATGGCCATCTCTGGACCAAAATGAAGATGCATTTGAAGCCCAGTTTCAAAAAAATGCAGTATCTTCGGGAGATTGGGGAGTTAAAAAAATTATGACTTTGTCATCTGCTTTTCCTATTTTTGAAGATGGAAACAAAGAAAATTATGGCTTACCACAGCCTAAAAATAAGCCCTTAGGAGCTAGGACCTTTGGAGAACGATCTCTCAGTAAATATTCCTCGAGATCAAATGAAATGCCTCACACTGATGAGTTTATGGATGATTCAACAGTATGTGGTATTCGCTGCAACAAAACTCTAGCTCCCAGTCCTAAAAGTATAGGAGACTTTACATCTGCTGCCCAACTTTCGTCTACACCATTCCACAAATTTCCAGCAGATTTAGTACAGATTCCAGAAGATAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGAGACTTTACATCTGCTGCC
60.09
TTTGTTTCTGGTCCACACTGTG
59.25
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATCTGCTGCCCAACTTTCG
59.83
TCACACACTTCTTTTGTTTCTGGT
59.24
141
PCR template sequence:
AGTCCTAAAAGTATAGGAGACTTTACATCTGCTGCCCAACTTTCGTCTACACCATTCCACAAATTTCCAGCAGATTTAGTACAGATTCCAGAAGATAAAGATGTGTGAATCAAAGTGTTCATGAATTCATGCCACAGTGTGGACCAGAAACAAAAGAAGTGTGTGAAACAAATAAAGTTGCCAGCATTAATGATTTTCAT
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-1a-3p(1), mmu-miR-206-3p(1), mmu-miR-434-3p(1), mmu-miR-494-3p(1), mmu-miR-335-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CCAGAAGATAAAGATGTGTGAATCAA
siRNA sets
TTCACACATCTTTATCTTC, GATTCACACATCTTTATCT, ACACATCTTTATCTTCTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBUB1_653_ORF_1
0.9579
0.002807475
0.747841518
633
ORF sequence:
ATGCCACAGTGTGGACCAGAAACAAAAGAAGTGTGTGAAACAAATAAAGTTGCCAGCATTAATGATTTTCATACAACTCCAAACACATCATTGGGAATGGTTCAAGGAACACCATGCAAAGTGCAGCCATCACCAACTGTCCACACCAAGGAAGCATTAGGTTTCATCATGGACATGTTTCAGGCTCCAACACTTCCTGACATTTCTGATGATAAAGATGAATGGCCATCTCTGGACCAAAATGAAGATGCATTTGAAGCCCAGTTTCAAAAAAATGCAGTATCTTCGGGAGATTGGGGAGTTAAAAAAATTATGACTTTGTCATCTGCTTTTCCTATTTTTGAAGATGGAAACAAAGAAAATTATGGCTTACCACAGCCTAAAAATAAGCCCTTAGGAGCTAGGACCTTTGGAGAACGATCTCTCAGTAAATATTCCTCGAGATCAAATGAAATGCCTCACACTGATGAGTTTATGGATGATTCAACAGTATGTGGTATTCGCTGCAACAAAACTCTAGCTCCCAGTCCTAAAAGTATAGGAGACTTTACATCTGCTGCCCAACTTTCGTCTACACCATTCCACAAATTTCCAGCAGATTTAGTACAGATTCCAGAAGATAAAGATGTGTGA
Peptide sequence:
MPQCGPETKEVCETNKVASINDFHTTPNTSLGMVQGTPCKVQPSPTVHTKEALGFIMDMFQAPTLPDISDDKDEWPSLDQNEDAFEAQFQKNAVSSGDWGVKKIMTLSSAFPIFEDGNKENYGLPQPKNKPLGARTFGERSLSKYSSRSNEMPHTDEFMDDSTVCGIRCNKTLAPSPKSIGDFTSAAQLSSTPFHKFPADLVQIPEDKDV
IRESfinder result
IRESfinder score
0.640597397
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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