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mmu_circSbno1_215
Basic information of circular RNA
PanCircBase ID:
mmu_circSbno1_215
mm39_Chr. Position ID:
chr5|124516532|124517485|-
Gene name:
Sbno1
Transcript:
ENSMUST00000065263.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
30,29
Exon/intron offsets:
0,815
Genomic length:
953
Exon/intron sizes in nt:
77,138
Flanking exon/introns:
chr5:124514354-124516532|chr5:124517485-124519571
Splice length:
215
Other database IDs:
circBase: hsa_circ_0008375, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_7451
Human Ortholog IDs:
Mature spliced Sequence:
ATAAGAAACAACAAAAAAACTGCAATCTTAGTTAAAGAAGTAAACCCTAAGAAGAAACTATTTTTAATTTACCGACCAAACACTGGGAAGCAACTCAAATTAGAAATTTATGCTGACCTGAAAAAGAAATATAAGAAGGTAGTTTCTGATGACGCCCTGGTACACTGGCTGGATCAGTATAACTCCTCTGCAGACACCTGTACTCACGCATACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTTTCTGATGACGCCCTGG
60.04
CTTCCCAGTGTTTGGTCGGT
60.18
165
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGGTACACTGGCTGGATC
59.82
CTTCCCAGTGTTTGGTCGGT
60.18
150
PCR template sequence:
ACCTGAAAAAGAAATATAAGAAGGTAGTTTCTGATGACGCCCTGGTACACTGGCTGGATCAGTATAACTCCTCTGCAGACACCTGTACTCACGCATACTGATAAGAAACAACAAAAAAACTGCAATCTTAGTTAAAGAAGTAAACCCTAAGAAGAAACTATTTTTAATTTACCGACCAAACACTGGGAAGCAACTCAAAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTCACGCATACTGATAAGAAACAACA
siRNA sets
TTGTTTCTTATCAGTATGC, TGTTTCTTATCAGTATGCG, GTTTCTTATCAGTATGCGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSBNO1_215_ORF_1
1.1064
-0.09759614
0.054238389
102
ORF sequence:
ATGACGCCCTGGTACACTGGCTGGATCAGTATAACTCCTCTGCAGACACCTGTACTCACGCATACTGATAAGAAACAACAAAAAAACTGCAATCTTAGTTAA
Peptide sequence:
MTPWYTGWISITPLQTPVLTHTDKKQQKNCNLS
IRESfinder result
IRESfinder score
0.67032263
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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