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mmu_circNbr1_357
Basic information of circular RNA
PanCircBase ID:
mmu_circNbr1_357
mm39_Chr. Position ID:
chr11|101444813|101450407|+
Gene name:
Nbr1
Transcript:
ENSMUST00000103099.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
2,3,4,5
Exon/intron offsets:
0,1822,2187,5531
Genomic length:
5594
Exon/intron sizes in nt:
111,66,117,63
Flanking exon/introns:
chr11:101443411-101444813|chr11:101450407-101451258
Splice length:
357
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
AAAAAACAAACAAACCAACCAACTTGAACGTGCTGGGGAGTTGCTGGGGAGTTGATGAGCCAGCGTCTGCCTAAATTTTACAGCTCCTAAGAAGGAAGAATTGCATTTCAGGCTGACCTAGAACTCTTGGACTTCCATTACCATCCTGCATCAACTTCTGAGTAACTGGGACTACAGCTCCAGCCAGACAGCATGGAACCACAGGTTACTCTAAATGTGACTTTTAAAAATGAAACTCAAAGCTTTCTGGTTTCGGATCCAGAAAATACAACCTGGGCTGATGTTGAAGCTATGGTAAAAGTTTCATTTGATCTGAATACTATCCAGATAAAATACCTGGATGAGGAGAACGAGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGGGCTGATGTTGAAGCT
60.32
CTGGCTCATCAACTCCCCAG
60.11
149
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCTGGGCTGATGTTGAAGCT
60.32
AGACGCTGGCTCATCAACTC
60.11
154
PCR template sequence:
TCCAGAAAATACAACCTGGGCTGATGTTGAAGCTATGGTAAAAGTTTCATTTGATCTGAATACTATCCAGATAAAATACCTGGATGAGGAGAACGAGGAGAAAAAACAAACAAACCAACCAACTTGAACGTGCTGGGGAGTTGCTGGGGAGTTGATGAGCCAGCGTCTGCCTAAATTTTACAGCTCCTAAGAAGGAAGAA
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
GGAGAACGAGGAGAAAAAACAAACAA
siRNA sets
TTTTTTCTCCTCGTTCTCC, TTTGTTTTTTCTCCTCGTT, TTGTTTGTTTTTTCTCCTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCNBR1_357_ORF_1
1.0816
0.024414299
0.146409018
192
ORF sequence:
ATGGAACCACAGGTTACTCTAAATGTGACTTTTAAAAATGAAACTCAAAGCTTTCTGGTTTCGGATCCAGAAAATACAACCTGGGCTGATGTTGAAGCTATGGTAAAAGTTTCATTTGATCTGAATACTATCCAGATAAAATACCTGGATGAGGAGAACGAGGAGAAAAAACAAACAAACCAACCAACTTGA
Peptide sequence:
MEPQVTLNVTFKNETQSFLVSDPENTTWADVEAMVKVSFDLNTIQIKYLDEENEEKKQTNQPT
IRESfinder result
IRESfinder score
0.671319356
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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