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mmu_ciNktr_442
Basic information of circular RNA
PanCircBase ID:
mmu_ciNktr_442
mm39_Chr. Position ID:
chr9|121570217|121570659|+
Gene name:
Nktr
Transcript:
ENSMUST00000183070.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
9
Exon/intron offsets:
0
Genomic length:
442
Exon/intron sizes in nt:
442
Flanking exon/introns:
chr9:121570217-121570663
Splice length:
442
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGCATCGGTTTGTTAAAATCTCAGAGAATTGTTTGATGAGCCCGAAAGACTTGCTGGCCTGGGTTAGTCTTTTGTAGCCAAGCTCTTCCCAAAGGGGCACAGGGTATAGGAGTTTGAGAGCCTGACTCATTTTTGCCCATGAGTTTTGCATATACTTGTTGAGATGAATTCTCAGTATGAAGTGTCCTCTCTTAGCAGATTCTTAACCCTAAAATGGCCAGCAGCTGTTGACAGCAGAGACTGCGTCCCACCTTGTCTTGAGATGAGCTGTCACTACTTCCTGTTAGGAAGTAGATTTCAAGTTGTCATTCCCTTATAATTGGTTCATAACACTTTGGTTTGTTTGTAGTTGTGTGGATAGTTTTTGATACCCGTTGTCCCAATTATGTTCATACTGTAATTATTACCAGACTAATTCATTCCTTGGATTTATATTATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTTTTTGATACCCGTTGTCCCA
59.11
AAAGACTAACCCAGGCCAGC
59.96
154
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACCCGTTGTCCCAATTATGT
57.11
AAAGACTAACCCAGGCCAGC
59.96
145
PCR template sequence:
TTGTTTGTAGTTGTGTGGATAGTTTTTGATACCCGTTGTCCCAATTATGTTCATACTGTAATTATTACCAGACTAATTCATTCCTTGGATTTATATTATGGTAAGCATCGGTTTGTTAAAATCTCAGAGAATTGTTTGATGAGCCCGAAAGACTTGCTGGCCTGGGTTAGTCTTTTGTAGCCAAGCTCTTCCCAAAGGGG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-495-3p(1), mmu-miR-452-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GATTTATATTATGGTAAGCATCGGTT
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
0.893090294
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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