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mmu_ciNbr1_468
Basic information of circular RNA
PanCircBase ID:
mmu_ciNbr1_468
mm39_Chr. Position ID:
chr11|101462259|101462727|+
Gene name:
Nbr1
Transcript:
ENSMUST00000103099.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
15
Exon/intron offsets:
0
Genomic length:
468
Exon/intron sizes in nt:
468
Flanking exon/introns:
chr11:101462259-101462727
Splice length:
468
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCAGTCCGCGCTCGGAGGGACAAGGGCAGAGAGAGTGAGTCCTGACAAATGAGCTTTCACCTTGTTACTGAGAAGGTGCTGTAGCCTTCATGGTCCTGGGGAGTTAGAGATGGGCAGGCTGGATCCAGTATCTCATGAGGATAAGATGGTGCGTGGAGCAAGTTTCTAAACTGTTTGCTTCTGAGTGTGAAGCTCAGGCTTGTGCTTCCCCATGGCTTCCCTCCAGTGGTCTTGTAAGCTTAGCCTGCTTCACTCACCTGCCCACTGTCTCTTCTCCCCTGCCAGTTAGAGTTTGAGAACACCATGTTCCTGTTTAACTCTTCTAGTCACTTGGTTGAGGGGGGACATGAATTTAAATAGAATTGAATCCAGGCAATGTCCAGGAGACCTGATGGTCCATTCAGGAAAGAGCATGGCTCCCACTTGTGCTGCAGACACCTTTATTTGGCCATCTCTTTTTCTAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTGTGCTGCAGACACCTT
60.11
ACCATGAAGGCTACAGCACC
60.04
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACTTGTGCTGCAGACACCTT
60.11
GGACCATGAAGGCTACAGCA
59.75
143
PCR template sequence:
GAATCCAGGCAATGTCCAGGAGACCTGATGGTCCATTCAGGAAAGAGCATGGCTCCCACTTGTGCTGCAGACACCTTTATTTGGCCATCTCTTTTTCTAGGTAAGCAGTCCGCGCTCGGAGGGACAAGGGCAGAGAGAGTGAGTCCTGACAAATGAGCTTTCACCTTGTTACTGAGAAGGTGCTGTAGCCTTCATGGTCC
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-690(1), mmu-miR-802-5p(1), mmu-miR-3061-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TCTCTTTTTCTAGGTAAGCAGTCCGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CINBR1_468_ORF_1
0.6865
-0.165316992
0.032026912
174
ORF sequence:
ATGAATTTAAATAGAATTGAATCCAGGCAATGTCCAGGAGACCTGATGGTCCATTCAGGAAAGAGCATGGCTCCCACTTGTGCTGCAGACACCTTTATTTGGCCATCTCTTTTTCTAGGTAAGCAGTCCGCGCTCGGAGGGACAAGGGCAGAGAGAGTGAGTCCTGACAAATGA
Peptide sequence:
MNLNRIESRQCPGDLMVHSGKSMAPTCAADTFIWPSLFLGKQSALGGTRAERVSPDK
IRESfinder result
IRESfinder score
0.740849509
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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