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mmu_circNbr1_294
Basic information of circular RNA
PanCircBase ID:
mmu_circNbr1_294
mm39_Chr. Position ID:
chr11|101444813|101447117|+
Gene name:
Nbr1
Transcript:
ENSMUST00000103099.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
2,3,4
Exon/intron offsets:
0,1822,2187
Genomic length:
2304
Exon/intron sizes in nt:
1,11,66,117
Flanking exon/introns:
chr11:101443411-101444813|chr11:101447117-101450344
Splice length:
294
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAACAAACAAACCAACCAACTTGAACGTGCTGGGGAGTTGCTGGGGAGTTGATGAGCCAGCGTCTGCCTAAATTTTACAGCTCCTAAGAAGGAAGAATTGCATTTCAGGCTGACCTAGAACTCTTGGACTTCCATTACCATCCTGCATCAACTTCTGAGTAACTGGGACTACAGCTCCAGCCAGACAGCATGGAACCACAGGTTACTCTAAATGTGACTTTTAAAAATGAAACTCAAAGCTTTCTGGTTTCGGATCCAGAAAATACAACCTGGGCTGATGTTGAAGCTATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AAGCTTTCTGGTTTCGGATCCA
60.22
AGCTGTAAAATTTAGGCAGACGC
59.87
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCACAGGTTACTCTAAATGTGACT
59.69
CTGGCTCATCAACTCCCCAG
60.11
160
PCR template sequence:
GGAACCACAGGTTACTCTAAATGTGACTTTTAAAAATGAAACTCAAAGCTTTCTGGTTTCGGATCCAGAAAATACAACCTGGGCTGATGTTGAAGCTATGAAAAAACAAACAAACCAACCAACTTGAACGTGCTGGGGAGTTGCTGGGGAGTTGATGAGCCAGCGTCTGCCTAAATTTTACAGCTCCTAAGAAGGAAGAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-23a-3p(1), mmu-miR-149-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
TGTTGAAGCTATGAAAAAACAAACAA
siRNA sets
TTGTTTTTTCATAGCTTCA, TTGTTTGTTTTTTCATAGC, TTTTTTCATAGCTTCAACA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNBR1_294_ORF_1
1.0504
-0.178673325
0.042980295
129
ORF sequence:
ATGGAACCACAGGTTACTCTAAATGTGACTTTTAAAAATGAAACTCAAAGCTTTCTGGTTTCGGATCCAGAAAATACAACCTGGGCTGATGTTGAAGCTATGAAAAAACAAACAAACCAACCAACTTGA
Peptide sequence:
MEPQVTLNVTFKNETQSFLVSDPENTTWADVEAMKKQTNQPT
IRESfinder result
IRESfinder score
0.643715062
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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