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mmu_circSbno1_414
Basic information of circular RNA
PanCircBase ID:
mmu_circSbno1_414
mm39_Chr. Position ID:
chr5|124546539|124548445|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
5,4
Exon/intron offsets:
0,1593
Genomic length:
1906
Exon/intron sizes in nt:
1,01,313
Flanking exon/introns:
chr5:124545250-124546539|chr5:124548445-124551247
Splice length:
414
Other database IDs:
circAtlas: mmu-Sbno1_0011
circBase: hsa_circ_0097737, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_7468
Human Ortholog IDs:
Mature spliced Sequence:
CAGCAGCCTCCATCCACTACAACGTTTGTGCTGAATCAAATAAATCAACTTCCAACTTTGGGATCTACAATTGTAATGACTAAAACACCACCTGCAACAACGAATAGGCAAACCATCACTTTGACAAAGTTCATCCAGACCACTGCAAACACACGCCCTTCAGTTTCAGCACCAGCAGTACGAAATGCCATGCCCGCTGCTCCTTCAAAAGACCAGGTTCAGCTAAAGGATTTACTCAAAAATAATAGTTTAAACGAACTCATGAAACTGAAGCCACCCGCCAATATTGCTCAGCCAGTTGCAACTGCAGCTACTGATGTCAGTAATGGTGCAGTTAAGAAGGAGTCTTCTAATAAAGAAGTGGCGAGGATATGGATAAATGACATGAAGATGAGGAGCTTTTCCCCCACCATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGTGGCGAGGATATGGA
57.91
GTTGCAGGTGGTGTTTTAGTCA
59.31
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAGTGGCGAGGATATGGA
57.91
TGTTGCAGGTGGTGTTTTAGTC
59.31
157
PCR template sequence:
TGATGTCAGTAATGGTGCAGTTAAGAAGGAGTCTTCTAATAAAGAAGTGGCGAGGATATGGATAAATGACATGAAGATGAGGAGCTTTTCCCCCACCATGCAGCAGCCTCCATCCACTACAACGTTTGTGCTGAATCAAATAAATCAACTTCCAACTTTGGGATCTACAATTGTAATGACTAAAACACCACCTGCAACAA
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-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-138-5p(1), mmu-miR-503-5p(1), mmu-miR-370-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCCCCACCATGCAGCAGCCTCCAT
siRNA sets
GGAGGCTGCTGCATGGTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBNO1_414_ORF_1
1.1354
0.093557383
0.934953589
753
ORF sequence:
ATGACTAAAACACCACCTGCAACAACGAATAGGCAAACCATCACTTTGACAAAGTTCATCCAGACCACTGCAAACACACGCCCTTCAGTTTCAGCACCAGCAGTACGAAATGCCATGCCCGCTGCTCCTTCAAAAGACCAGGTTCAGCTAAAGGATTTACTCAAAAATAATAGTTTAAACGAACTCATGAAACTGAAGCCACCCGCCAATATTGCTCAGCCAGTTGCAACTGCAGCTACTGATGTCAGTAATGGTGCAGTTAAGAAGGAGTCTTCTAATAAAGAAGTGGCGAGGATATGGATAAATGACATGAAGATGAGGAGCTTTTCCCCCACCATGCAGCAGCCTCCATCCACTACAACGTTTGTGCTGAATCAAATAAATCAACTTCCAACTTTGGGATCTACAATTGTAATGACTAAAACACCACCTGCAACAACGAATAGGCAAACCATCACTTTGACAAAGTTCATCCAGACCACTGCAAACACACGCCCTTCAGTTTCAGCACCAGCAGTACGAAATGCCATGCCCGCTGCTCCTTCAAAAGACCAGGTTCAGCTAAAGGATTTACTCAAAAATAATAGTTTAAACGAACTCATGAAACTGAAGCCACCCGCCAATATTGCTCAGCCAGTTGCAACTGCAGCTACTGATGTCAGTAATGGTGCAGTTAAGAAGGAGTCTTCTAATAAAGAAGTGGCGAGGATATGGATAAATGACATGAAGATGAGGAGCTTTTCCCCCACCATG
Peptide sequence:
MTKTPPATTNRQTITLTKFIQTTANTRPSVSAPAVRNAMPAAPSKDQVQLKDLLKNNSLNELMKLKPPANIAQPVATAATDVSNGAVKKESSNKEVARIWINDMKMRSFSPTMQQPPSTTTFVLNQINQLPTLGSTIVMTKTPPATTNRQTITLTKFIQTTANTRPSVSAPAVRNAMPAAPSKDQVQLKDLLKNNSLNELMKLKPPANIAQPVATAATDVSNGAVKKESSNKEVARIWINDMKMRSFSPTM
IRESfinder result
IRESfinder score
0.399156355
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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