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mmu_ciHsph1_506
Basic information of circular RNA
PanCircBase ID:
mmu_ciHsph1_506
mm39_Chr. Position ID:
chr5|149554992|149555498|-
Gene name:
Hsph1
Transcript:
ENSMUST00000201452.4
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
3
Exon/intron offsets:
0
Genomic length:
506
Exon/intron sizes in nt:
506
Flanking exon/introns:
chr5:149554974-149555498
Splice length:
506
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAATACCACTGATCCCCAAGCTCTGAGCCATCTGTAGAGGGGAGTGCTCACATCTTAGGATTTTAGCCCAAAGTAATGGGATACACTGGGGTCCTTTCCTTTTCGTTTGGCTCCTTTTAAAGTATAGTTAATATAAGCTGTTTTCTAAGAAGTACTCCACTGGTAATGCATTTCTGTAGATTAATCTGTGTTTCTTGGTTGCTTTAGTATTAAAAAAATCTAAGTAATGATGTCTCCAAAGTGGTCAGACAGCCCTTTGGCAGCATGTGCCAAGCAGTAGAGCAACAACCAGACGTCCAGCTAAGAGCAGTTGTCTGGTCAACACGAGTCTTGGTGATTCAGCCCTAACTTTCCCTCTTCATCTCTAGGGAAACGCTCTTCCTCCTTTCTTCCCTTTCTTTGTTAGTTCCTCTTTTCTTTCCAAACAAATTTTGTGGAGCAGGGTATATGCTAACAGTTGGATGTTCATATTAGCGTTTCGCTGAAGTGTTAAAGTATTTAAACA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAATTTTGTGGAGCAGGGT
58.6
AAGGACCCCAGTGTATCCCA
59.88
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAAATTTTGTGGAGCAGGGT
58.6
AGGACCCCAGTGTATCCCAT
59.65
177
PCR template sequence:
GTTCCTCTTTTCTTTCCAAACAAATTTTGTGGAGCAGGGTATATGCTAACAGTTGGATGTTCATATTAGCGTTTCGCTGAAGTGTTAAAGTATTTAAACAGTAATACCACTGATCCCCAAGCTCTGAGCCATCTGTAGAGGGGAGTGCTCACATCTTAGGATTTTAGCCCAAAGTAATGGGATACACTGGGGTCCTTTCC
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-199a-5p(1), mmu-miR-143-3p(1), mmu-miR-10b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAGTATTTAAACAGTAATACCACTGA
siRNA sets
TATTACTGTTTAAATACTT
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
0.875217837
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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