top of page
mmu_circSbno1_496
Basic information of circular RNA
PanCircBase ID:
mmu_circSbno1_496
mm39_Chr. Position ID:
chr5|124522529|124526723|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
25,24,23,22,21
Exon/intron offsets:
0,2363,2852,3010,4058
Genomic length:
4194
Exon/intron sizes in nt:
75,10,07,21,13,136
Flanking exon/introns:
chr5:124520068-124522529|chr5:124526723-124529984
Splice length:
496
Other database IDs:
circAtlas: mmu-Sbno1_0047
Human Ortholog IDs:
Mature spliced Sequence:
AATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAAAAACCAAAGGCGAAGAGTTCACATGACTTTAGAATTACCTTGGAGTGCTGATAGGGCGATTCAGCAGTTTGGAAGAACACACAGGTCAAACCAAGTGACTGCTCCAGAGTATGTTTTTTTGATTTCGGAACTGGCTGGAGAACAGAGATTTGCATCTATTGTTGCTAAAAGACTTGAGAGTTTGGGGGCACTTACACATGGTGACAGAAGAGCAACAGAATCTAGAGATCTGAGCAGATTCAACTTTGACAACAAGTATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAAGACGTTCGGCAAGGACTGATAGGAGTGGGCTTGATTAATGTAGAGGATCGCTCAGGAATTCTTACTCTTGATAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAAGACGTTCGGCAAGGACT
59.89
TGTGAACTCTTCGCCTTTGGT
60.13
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GACGTTCGGCAAGGACTGAT
60.39
TGTGAACTCTTCGCCTTTGGT
60.13
164
PCR template sequence:
GACTACCCTGGAGAATTCTTTAAAGACGTTCGGCAAGGACTGATAGGAGTGGGCTTGATTAATGTAGAGGATCGCTCAGGAATTCTTACTCTTGATAAAGAATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAAAAACCAAAGGCGAAGAGTTCACATGACTTTAGAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-467b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTCTTGATAAAGAATATTGCTATTA
siRNA sets
ATAGCAATATTCTTTATCA,AATAGCAATATTCTTTATC,TAATAGCAATATTCTTTAT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBNO1_496_ORF_1
0.6983
-0.064659944
0.307559286
474
ORF sequence:
ATGACTTTAGAATTACCTTGGAGTGCTGATAGGGCGATTCAGCAGTTTGGAAGAACACACAGGTCAAACCAAGTGACTGCTCCAGAGTATGTTTTTTTGATTTCGGAACTGGCTGGAGAACAGAGATTTGCATCTATTGTTGCTAAAAGACTTGAGAGTTTGGGGGCACTTACACATGGTGACAGAAGAGCAACAGAATCTAGAGATCTGAGCAGATTCAACTTTGACAACAAGTATGGAAGAAATGCTTTAGAAATTGTTATGAAATCCATTGTAAACTTGGATTCTCCTATGGTATCACCACCTCCAGACTACCCTGGAGAATTCTTTAAAGACGTTCGGCAAGGACTGATAGGAGTGGGCTTGATTAATGTAGAGGATCGCTCAGGAATTCTTACTCTTGATAAAGAATATTGCTATTATCTCAGAAGCTGCCAGCTCAGGTATTTCATTACAAGCAGATCGGAGAGCTAA
Peptide sequence:
MTLELPWSADRAIQQFGRTHRSNQVTAPEYVFLISELAGEQRFASIVAKRLESLGALTHGDRRATESRDLSRFNFDNKYGRNALEIVMKSIVNLDSPMVSPPPDYPGEFFKDVRQGLIGVGLINVEDRSGILTLDKEYCYYLRSCQLRYFITSRSES
IRESfinder result
IRESfinder score
0.726364329
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page