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mmu_circBptf_226
Basic information of circular RNA
PanCircBase ID:
mmu_circBptf_226
mm39_Chr. Position ID:
chr11|106943614|106943840|-
Gene name:
Bptf
Transcript:
ENSMUST00000057892.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
1
Exon/intron indexes:
23
Exon/intron offsets:
0
Genomic length:
226
Exon/intron sizes in nt:
226
Flanking exon/introns:
chr11:106938169-106943614|chr11:106943840-106944048
Splice length:
226
Other database IDs:
circAtlas: hsa-BPTF_0160, CIRCpedia: HSA_CIRCpedia_79606
Human Ortholog IDs:
Mature spliced Sequence:
GATGATTGTCTGTAACCAGGTGATGAAGTATATTCTGGATAAGATAGATAAAGAAGAAAAACAGGCGGCCAAGAAACGCAAGCGGGAGGAGAGTGTGGAGCAGAAGCGGAGCAAACAGAATGCCAGCAAGCTCTCTGCTCTGCTGTTCAAACACAAGGAGCAGCTCAAAGCTGAGATCCTGAGAAAGAGAGCGCTCCTGGACAAAGAGTTGCAGATCCAAGTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCTCTCTGCTCTGCTGTTCA
60.04
GTTTCTTGGCCGCCTGTTTT
59.9
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACAAGGAGCAGCTCAAAGC
59.76
GTTTCTTGGCCGCCTGTTTT
59.9
152
PCR template sequence:
CAAGCTCTCTGCTCTGCTGTTCAAACACAAGGAGCAGCTCAAAGCTGAGATCCTGAGAAAGAGAGCGCTCCTGGACAAAGAGTTGCAGATCCAAGTGCAGGATGATTGTCTGTAACCAGGTGATGAAGTATATTCTGGATAAGATAGATAAAGAAGAAAAACAGGCGGCCAAGAAACGCAAGCGGGAGGAGAGTGTGGAG
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-207(1), mmu-miR-5101(1), mmu-miR-669d-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GATCCAAGTGCAGGATGATTGTCTGT
siRNA sets
ACAATCATCCTGCACTTGG, CAATCATCCTGCACTTGGA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBPTF_226_ORF_1
1.2382
0.464286242
0.663540574
240
ORF sequence:
ATGATTGTCTGTAACCAGGTGATGAAGTATATTCTGGATAAGATAGATAAAGAAGAAAAACAGGCGGCCAAGAAACGCAAGCGGGAGGAGAGTGTGGAGCAGAAGCGGAGCAAACAGAATGCCAGCAAGCTCTCTGCTCTGCTGTTCAAACACAAGGAGCAGCTCAAAGCTGAGATCCTGAGAAAGAGAGCGCTCCTGGACAAAGAGTTGCAGATCCAAGTGCAGGATGATTGTCTGTAA
Peptide sequence:
MIVCNQVMKYILDKIDKEEKQAAKKRKREESVEQKRSKQNASKLSALLFKHKEQLKAEILRKRALLDKELQIQVQDDCL
IRESfinder result
IRESfinder score
0.195678727
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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