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mmu_ciNf1_591
Basic information of circular RNA
PanCircBase ID:
mmu_ciNf1_591
mm39_Chr. Position ID:
chr11|79438708|79439299|+
Gene name:
Nf1
Transcript:
ENSMUST00000108251.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
42
Exon/intron offsets:
0
Genomic length:
591
Exon/intron sizes in nt:
591
Flanking exon/introns:
chr11:79438708-79439299
Splice length:
591
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTATAGAAAGAAAAATGACAAGAAACCAAATTAAAATCGTATTTAAAATGTGTAATATGAAAGGTATAATGTCACAGGAGGGAGAGACAGGTAGATTGTGTGAACTTGAAGCCAGCTGAATCTATGTAGGGAATTCTAGGCCAGCCAAGCCTACATAATAACACCTCATCTGAAAAAAAAAATTCTGTAATATACAGAAGAAATACTGGTTTATTCTGTTACAGTACACACTGTCCTTTAGAATGTGTTCTTTCTTTACATTTATCTTACTTTATGTATCTGAATGTTTTGCTGGCATGTATGTGTGTACACCACATGTGTGCCTGTTGTCCAAGGTTGAGAGAAGAATCCAGAAGAGGACATCAAATTCCCCAGAACCAAAGTTACGGATGGATATGAACCAGTCTGTGGATTCTAGAAACAGAAGTCATATCTTTCCTCTGCCACAACAAGTACTCTTAACTGCCTAGCCATGTCTCTAGCCCCTAGAATGTGTTTTTTATAGCAGATAACACTTAAAGACATGAGAATATTAAATATTCCTAGAAACATTTATGTACACATATATATTTAGAGTATTCTCTTTTTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGATAACACTTAAAGACATGAGA
58.38
CCTGTCTCTCCCTCCTGTGA
59.96
179
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCAGATAACACTTAAAGACATGAGA
58.38
ACCTGTCTCTCCCTCCTGTG
60.25
180
PCR template sequence:
TGTGTTTTTTATAGCAGATAACACTTAAAGACATGAGAATATTAAATATTCCTAGAAACATTTATGTACACATATATATTTAGAGTATTCTCTTTTTCAGGTATAGAAAGAAAAATGACAAGAAACCAAATTAAAATCGTATTTAAAATGTGTAATATGAAAGGTATAATGTCACAGGAGGGAGAGACAGGTAGATTGTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1), mmu-miR-297a-5p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCTCTTTTTCAGGTATAGAAAGAAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CINF1_591_ORF_3
0.5875
-0.396470003
0.009253523
156
ORF sequence:
ATGTACACATATATATTTAGAGTATTCTCTTTTTCAGGTATAGAAAGAAAAATGACAAGAAACCAAATTAAAATCGTATTTAAAATGTGTAATATGAAAGGTATAATGTCACAGGAGGGAGAGACAGGTAGATTGTGTGAACTTGAAGCCAGCTGA
Peptide sequence:
MYTYIFRVFSFSGIERKMTRNQIKIVFKMCNMKGIMSQEGETGRLCELEAS
IRESfinder result
IRESfinder score
0.83416786
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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