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mmu_circSbno1_1092
Basic information of circular RNA
PanCircBase ID:
mmu_circSbno1_1092
mm39_Chr. Position ID:
chr5|124524892|124532058|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
24,23,22,21,20,19,18,17
Exon/intron offsets:
0,489,647,1695,5092,5744,6009,6971
Genomic length:
7166
Exon/intron sizes in nt:
10,07,21,13,13,61,32,10,00,00,000
Flanking exon/introns:
chr5:124522604-124524892|chr5:124532058-124533957
Splice length:
1092
Other database IDs:
circAtlas: mmu-Sbno1_0020
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_127991
Human Ortholog IDs:
Mature spliced Sequence:
GTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGACGAAAGCGACTATGAGAGCTCTAAAAACATGAGCTCTGGGGATGATGACGATTTCAATCCCTTCAGAGATGAGTCCAGTGAAGACAATGAGGATGATCCGTGGTTAATTAGGAAAGACCATAAGAAAAGCAAAGATAAAAAAAAGAAGAAAAGTATAGATCCAGATTCCATTCAAAGTGCCTTGTTAGCATCAGGTCTTGGATCAAAGCGGCCTAGTTTCTCCTCTGCACCAGTCATCTCGCCTGCTTCCAACAGTGCACCAGCCAACAGTAACAGCAACAGCAACAGCAGCCTTGTAACAAGTCAAGATGCTGTCGAAAGGGCGCAACAGATGAAGAAAGACCTGCTTGATAAACTAGAAAAATTGGCTGAAGACCTCCCTCCTAACACCCTGGATGAACTTATCGATGAACTTGGTGGTCCTGAAAATGTGGCTGAGATGACTGGCCGCAAAGGGCGGGTAGTGAGCAATGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAGAATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAAAAACCAAAGGCGAAGAGTTCACATGACTTTAGAATTACCTTGGAGTGCTGATAGGGCGATTCAGCAGTTTGGAAGAACACACAGGTCAAACCAAGTGACTGCTCCAGAGTATGTTTTTTTGATTTCGGAACTGGCTGGAGAACAGAGATTTGCATCTATTGTTGCTAAAAGACTTGAGAGTTTGGGGGCACTTACACATGGTGACAGAAGAGCAACAGAATCTAGAGATCTGAGCAGATTCAACTTTGACAACAAGTATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATTCTCCTATGGTATCACCACC
60.02
CAGACTCACTTCCACTGTCGT
59.66
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGATTCTCCTATGGTATCACCACC
60.02
ACAGACTCACTTCCACTGTCG
59.66
141
PCR template sequence:
TATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAAGGTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-9-5p(1), mmu-miR-298-5p(1), mmu-miR-138-5p(1), mmu-miR-434-5p(1), mmu-miR-467b-5p(1), mmu-miR-541-5p(1), mmu-miR-544-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GAATTCTTTAAAGGTGAAGAAATCAC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBNO1_1092_ORF_1
1.0294
0.171081758
0.999994707
2055
ORF sequence:
ATGAGCTCTGGGGATGATGACGATTTCAATCCCTTCAGAGATGAGTCCAGTGAAGACAATGAGGATGATCCGTGGTTAATTAGGAAAGACCATAAGAAAAGCAAAGATAAAAAAAAGAAGAAAAGTATAGATCCAGATTCCATTCAAAGTGCCTTGTTAGCATCAGGTCTTGGATCAAAGCGGCCTAGTTTCTCCTCTGCACCAGTCATCTCGCCTGCTTCCAACAGTGCACCAGCCAACAGTAACAGCAACAGCAACAGCAGCCTTGTAACAAGTCAAGATGCTGTCGAAAGGGCGCAACAGATGAAGAAAGACCTGCTTGATAAACTAGAAAAATTGGCTGAAGACCTCCCTCCTAACACCCTGGATGAACTTATCGATGAACTTGGTGGTCCTGAAAATGTGGCTGAGATGACTGGCCGCAAAGGGCGGGTAGTGAGCAATGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAGAATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAAAAACCAAAGGCGAAGAGTTCACATGACTTTAGAATTACCTTGGAGTGCTGATAGGGCGATTCAGCAGTTTGGAAGAACACACAGGTCAAACCAAGTGACTGCTCCAGAGTATGTTTTTTTGATTTCGGAACTGGCTGGAGAACAGAGATTTGCATCTATTGTTGCTAAAAGACTTGAGAGTTTGGGGGCACTTACACATGGTGACAGAAGAGCAACAGAATCTAGAGATCTGAGCAGATTCAACTTTGACAACAAGTATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAAGGTGAAGAAATCACTCGAGAAGCCAAAAAAGCACGAAAAGTTGGTGGCCTCACAGGAAGCAGCTCTGACGACAGTGGAAGTGAGTCTGTGTCTGATAATGACGAAAGCGACTATGAGAGCTCTAAAAACATGAGCTCTGGGGATGATGACGATTTCAATCCCTTCAGAGATGAGTCCAGTGAAGACAATGAGGATGATCCGTGGTTAATTAGGAAAGACCATAAGAAAAGCAAAGATAAAAAAAAGAAGAAAAGTATAGATCCAGATTCCATTCAAAGTGCCTTGTTAGCATCAGGTCTTGGATCAAAGCGGCCTAGTTTCTCCTCTGCACCAGTCATCTCGCCTGCTTCCAACAGTGCACCAGCCAACAGTAACAGCAACAGCAACAGCAGCCTTGTAACAAGTCAAGATGCTGTCGAAAGGGCGCAACAGATGAAGAAAGACCTGCTTGATAAACTAGAAAAATTGGCTGAAGACCTCCCTCCTAACACCCTGGATGAACTTATCGATGAACTTGGTGGTCCTGAAAATGTGGCTGAGATGACTGGCCGCAAAGGGCGGGTAGTGAGCAATGATGACGGAAGCATATCCTACGAGTCGAGGTCTGAACTTGATGTGCCTGTGGAGATTCTAAACATCACAGAGAAGCAAAGGTTCATGGATGGAGACAAGAATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAAAAACCAAAGGCGAAGAGTTCACATGACTTTAGAATTACCTTGGAGTGCTGATAGGGCGATTCAGCAGTTTGGAAGAACACACAGGTCAAACCAAGTGACTGCTCCAGAGTATGTTTTTTTGATTTCGGAACTGGCTGGAGAACAGAGATTTGCATCTATTGTTGCTAAAAGACTTGAGAGTTTGGGGGCACTTACACATGGTGACAGAAGAGCAACAGAATCTAGAGATCTGAGCAGATTCAACTTTGACAACAAGTATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAA
Peptide sequence:
MSSGDDDDFNPFRDESSEDNEDDPWLIRKDHKKSKDKKKKKSIDPDSIQSALLASGLGSKRPSFSSAPVISPASNSAPANSNSNSNSSLVTSQDAVERAQQMKKDLLDKLEKLAEDLPPNTLDELIDELGGPENVAEMTGRKGRVVSNDDGSISYESRSELDVPVEILNITEKQRFMDGDKNIAIISEAASSGISLQADRRAKNQRRRVHMTLELPWSADRAIQQFGRTHRSNQVTAPEYVFLISELAGEQRFASIVAKRLESLGALTHGDRRATESRDLSRFNFDNKYGRNALEIVMKSIVNLDSPMVSPPPDYPGEFFKGEEITREAKKARKVGGLTGSSSDDSGSESVSDNDESDYESSKNMSSGDDDDFNPFRDESSEDNEDDPWLIRKDHKKSKDKKKKKSIDPDSIQSALLASGLGSKRPSFSSAPVISPASNSAPANSNSNSNSSLVTSQDAVERAQQMKKDLLDKLEKLAEDLPPNTLDELIDELGGPENVAEMTGRKGRVVSNDDGSISYESRSELDVPVEILNITEKQRFMDGDKNIAIISEAASSGISLQADRRAKNQRRRVHMTLELPWSADRAIQQFGRTHRSNQVTAPEYVFLISELAGEQRFASIVAKRLESLGALTHGDRRATESRDLSRFNFDNKYGRNALEIVMKSIVNLDSPMVSPPPDYPGEFFK
IRESfinder result
IRESfinder score
0.547404144
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
RPF, cORF, m6A
mmu_circSbno1_001
Evidence
Peptide sequence:
MSSGDDDDFNPFRDESSEDNEDDPWLIRKDHKKSKDKKKKKSIDPDSIQSALLASGLGSKRPSFSSAPVISPASNSAPANSNSNSNSSLVTSQDAVERAQQMKKDLLDKLEKLAEDLPPNTLDELIDELGGPENVAEMTGRKGRVVSNDDGSISYESRSELDVPVEILNITEKQRFMDGDKNIAIISEAASSGISLQADRRAKNQRRRVHMTLELPWSADRAIQQFGRTHRSNQVTAPEYVFLISELAGEQRFASIVAKRLESLGALTHGDRRATESRDLSRFNFDNKYGRNALEIVMKSIVNLDSPMVSPPPDYPGEFFKGEEITREAKKARKVGGLTGSSSDDSGSESVSDNDESDYESSKNMSSGDDDDFNPFRDESSEDNEDDPWLIRKDHKKSKDKKKKKSIDPDSIQSALLASGLGSKRPSFSSAPVISPASNSAPANSNSNSNSSLVTSQDAVERAQQMKKDLLDKLEKLAEDLPPNTLDELIDELGGPENVAEMTGRKGRVVSNDDGSISYESRSELDVPVEILNITEKQRFMDGDKNIAIISEAASSGISLQADRRAKNQRRRVHMTLELPWSADRAIQQFGRTHRSNQVTAPEYVFLISELAGEQRFASIVAKRLESLGALTHGDRRATESRDLSRFNFDNKYGRNALEIVMKSIVNLDSPMVSPPPDYPGEFFKGEEITREAKKARKVGGLTGSSSDDSGSESVSDNDESDYESSKN
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