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mmu_circNt5c2_273
Basic information of circular RNA
PanCircBase ID:
mmu_circNt5c2_273
mm39_Chr. Position ID:
chr19|46892316|46897987|-
Gene name:
Nt5c2
Transcript:
ENSMUST00000235596.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
6,5,4
Exon/intron offsets:
0,1097,5612
Genomic length:
5671
Exon/intron sizes in nt:
96,118,59
Flanking exon/introns:
chr19:46887333-46892316|chr19:46897987-46912700
Splice length:
273
Other database IDs:
circAtlas: mmu-Nt5c2_0002
circAtlas: hsa-NT5C2_0008, CIRCpedia: HSA_CIRCpedia_129274
Human Ortholog IDs:
Mature spliced Sequence:
GAAAGCCAGTGTAACTCCTTCAAGACTGGAGTGGCACACACTACCTGCATCTGCCTCATTGTACAAGTCTCCAGAATATGAATCCCTTGGCTTTGAGCTTACTGTGGAGAGATTAGTTTCCATTGGCTATCCTCAGGAGCTGCTCAGCTTTGCATATGATTCTACATTCCCTACCAGAGGACTTGTCTTTGACACGCTCTATGGAAATCTTTTGAAAGTCGATGCCTATGGAAACCTCTTGGTGTGTGCACATGGATTTAACTTCATAAGAGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACTTGTCTTTGACACGCT
59.86
AGATGCAGGTAGTGTGTGCC
60.04
148
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGACTTGTCTTTGACACGCT
59.86
GGCAGATGCAGGTAGTGTGT
60.04
151
PCR template sequence:
CCAGAGGACTTGTCTTTGACACGCTCTATGGAAATCTTTTGAAAGTCGATGCCTATGGAAACCTCTTGGTGTGTGCACATGGATTTAACTTCATAAGAGGGAAAGCCAGTGTAACTCCTTCAAGACTGGAGTGGCACACACTACCTGCATCTGCCTCATTGTACAAGTCTCCAGAATATGAATCCCTTGGCTTTGAGCTT
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-1a-3p(1), mmu-miR-206-3p(1), mmu-let-7b-5p(1), mmu-miR-709(1), mmu-miR-541-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACTTCATAAGAGGGAAAGCCAGTGTA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.847773922
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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