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mmu_circSbno1_671
Basic information of circular RNA
PanCircBase ID:
mmu_circSbno1_671
mm39_Chr. Position ID:
chr5|124529984|124532058|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
20,19,18,17
Exon/intron offsets:
0,652,917,1879
Genomic length:
2074
Exon/intron sizes in nt:
1,32,17,61,68,195
Flanking exon/introns:
chr5:124526723-124529984|chr5:124532058-124533957
Splice length:
671
Other database IDs:
CIRCpedia: MMU_CIRCpedia_6305, circAtlas: mmu-Sbno1_0016
circBase: hsa_circ_0029214, circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGACGAAAGCGACTATGAGAGCTCTAAAAACATGAGCTCTGGGGATGATGACGATTTCAATCCCTTCAGAGATGAGTCCAGTGAAGACAATGAGGATGATCCGTGGTTAATTAGGAAAGACCATAAGAAAAGCAAAGATAAAAAAAAGAAGAAAAGTATAGATCCAGATTCCATTCAAAGTGCCTTGTTAGCATCAGGTCTTGGATCAAAGCGGCCTAGTTTCTCCTCTGCACCAGTCATCTCGCCTGCTTCCAACAGTGCACCAGCCAACAGTAACAGCAACAGCAACAGCAGCCTTGTAACAAGTCAAGATGCTGTCGAAAGGGCGCAACAGATGAAGAAAGACCTGCTTGATAAACTAGAAAAATTGGCTGAAGACCTCCCTCCTAACACCCTGGATGAACTTATCGATGAACTTGGTGGTCCTGAAAATGTGGCTGAGATGACTGGCCGCAAAGGGCGGGTAGTGAGCAATGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCTACGAGTCGAGGTCTGA
59.1
ACTGTCGTCAGAGCTGCTTC
60.04
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGAACTTGATGTGCCTGTGGA
59.86
ACTGTCGTCAGAGCTGCTTC
60.04
141
PCR template sequence:
TGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAGGTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-434-5p(1), mmu-miR-541-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGATGGAGACAAGGTGAAGAAATCAC
siRNA sets
TTTCTTCACCTTGTCTCCA, CTTCACCTTGTCTCCATCC, ATTTCTTCACCTTGTCTCC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBNO1_671_ORF_1
1.0517
0.272932962
0.93512584
675
ORF sequence:
ATGAGCTCTGGGGATGATGACGATTTCAATCCCTTCAGAGATGAGTCCAGTGAAGACAATGAGGATGATCCGTGGTTAATTAGGAAAGACCATAAGAAAAGCAAAGATAAAAAAAAGAAGAAAAGTATAGATCCAGATTCCATTCAAAGTGCCTTGTTAGCATCAGGTCTTGGATCAAAGCGGCCTAGTTTCTCCTCTGCACCAGTCATCTCGCCTGCTTCCAACAGTGCACCAGCCAACAGTAACAGCAACAGCAACAGCAGCCTTGTAACAAGTCAAGATGCTGTCGAAAGGGCGCAACAGATGAAGAAAGACCTGCTTGATAAACTAGAAAAATTGGCTGAAGACCTCCCTCCTAACACCCTGGATGAACTTATCGATGAACTTGGTGGTCCTGAAAATGTGGCTGAGATGACTGGCCGCAAAGGGCGGGTAGTGAGCAATGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAGGTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGACGAAAGCGACTATGAGAGCTCTAAAAACATGA
Peptide sequence:
MSSGDDDDFNPFRDESSEDNEDDPWLIRKDHKKSKDKKKKKSIDPDSIQSALLASGLGSKRPSFSSAPVISPASNSAPANSNSNSNSSLVTSQDAVERAQQMKKDLLDKLEKLAEDLPPNTLDELIDELGGPENVAEMTGRKGRVVSNDDGSISYESRSELDVPVEILNITEKQRFMDGDKVKKSLEKPKKHEKLVASQEAALTTVEVSLCLIMTKATMRALKT
IRESfinder result
IRESfinder score
0.387671459
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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