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mmu_circBoll_351
Basic information of circular RNA
PanCircBase ID:
mmu_circBoll_351
mm39_Chr. Position ID:
chr1|55379631|55394898|-
Gene name:
Boll
Transcript:
ENSMUST00000173983.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
5,4,3,2
Exon/intron offsets:
0,5904,8408,15175
Genomic length:
15267
Exon/intron sizes in nt:
128,76,55,92
Flanking exon/introns:
chr1:55362880-55379631|chr1:55394898-55399774
Splice length:
351
Other database IDs:
CIRCpedia: MMU_CIRCpedia_23132, circAtlas: mmu-Boll_0010
Human Ortholog IDs:
Mature spliced Sequence:
ACAAACGAAAATGATTTAAGAAAATTTTTCTCCCAATATGGGTCTGTAAAAGAAGTGAAGATTGTTAATGACAGAGCTGGAGTGTCCAAAGGGTATGGTTTCATCACTTTTGAAACTCAAGAAGATGCACAAAAAATCTTACAAGAGGCTGAAAAACTCAATTATAAGGATAAGAAACTCAACATTGGTCCAGCAATAAGAAAACAACAAGTAGGGATTCCTCGTTCTAGTCTCATGCCAGCGGCTGGAACAATGTATCTGACCACTTCAACTGGGTACCCTTATACTTACCATAATGGCGTTGCTTATTTTCATACTCCAGAAGTAACTTCTGTCCCACCATCTTGGCCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACCACTTCAACTGGGTAC
57.08
TGGACACTCCAGCTCTGTCA
60.47
180
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CTGACCACTTCAACTGGGTACC
60.55
GGACACTCCAGCTCTGTCAT
59.1
180
PCR template sequence:
AATGTATCTGACCACTTCAACTGGGTACCCTTATACTTACCATAATGGCGTTGCTTATTTTCATACTCCAGAAGTAACTTCTGTCCCACCATCTTGGCCTACAAACGAAAATGATTTAAGAAAATTTTTCTCCCAATATGGGTCTGTAAAAGAAGTGAAGATTGTTAATGACAGAGCTGGAGTGTCCAAAGGGTATGGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
ACCATCTTGGCCTACAAACGAAAATG
siRNA sets
CATTTTCGTTTGTAGGCCA, TTTCGTTTGTAGGCCAAGA, ATTTTCGTTTGTAGGCCAA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCBOLL_351_ORF_1
1.0233
-0.038824364
0.465546035
468
ORF sequence:
ATGCCAGCGGCTGGAACAATGTATCTGACCACTTCAACTGGGTACCCTTATACTTACCATAATGGCGTTGCTTATTTTCATACTCCAGAAGTAACTTCTGTCCCACCATCTTGGCCTACAAACGAAAATGATTTAAGAAAATTTTTCTCCCAATATGGGTCTGTAAAAGAAGTGAAGATTGTTAATGACAGAGCTGGAGTGTCCAAAGGGTATGGTTTCATCACTTTTGAAACTCAAGAAGATGCACAAAAAATCTTACAAGAGGCTGAAAAACTCAATTATAAGGATAAGAAACTCAACATTGGTCCAGCAATAAGAAAACAACAAGTAGGGATTCCTCGTTCTAGTCTCATGCCAGCGGCTGGAACAATGTATCTGACCACTTCAACTGGGTACCCTTATACTTACCATAATGGCGTTGCTTATTTTCATACTCCAGAAGTAACTTCTGTCCCACCATCTTGGCCT
Peptide sequence:
MPAAGTMYLTTSTGYPYTYHNGVAYFHTPEVTSVPPSWPTNENDLRKFFSQYGSVKEVKIVNDRAGVSKGYGFITFETQEDAQKILQEAEKLNYKDKKLNIGPAIRKQQVGIPRSSLMPAAGTMYLTTSTGYPYTYHNGVAYFHTPEVTSVPPSWP
IRESfinder result
IRESfinder score
0.69048636
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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