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mmu_ciHdac5_216
Basic information of circular RNA
PanCircBase ID:
mmu_ciHdac5_216
mm39_Chr. Position ID:
chr11|102087148|102087364|-
Gene name:
Hdac5
Transcript:
ENSMUST00000107151.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
22
Exon/intron offsets:
0
Genomic length:
216
Exon/intron sizes in nt:
216
Flanking exon/introns:
chr11:102087148-102087364
Splice length:
216
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTGAGTGTGGGACAGGTGGGGACTGACGGGTCAGTAGGGACATCCACTTCCCTGGGGTCTTTGGGGTTTGCCTAGGTCTGAAAACACTTGGTCAGGGAAGGGCTTCCTCCCAAAAGCCTGTGCTTGCCAGGGCTGGATGGGGATAGTCAGAGAGCTAAGTAAGCATCAGGCATCGCTCCTCATCCCACTCTAAGCCTGCTCTTCTTTCTCTGCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGCTGGATGGGGATAGTC
60.47
TAGGCAAACCCCAAAGACCC
59.89
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGGCTGGATGGGGATAGTC
60.47
AAGACCCCAGGGAAGTGGAT
60.18
149
PCR template sequence:
CCTGTGCTTGCCAGGGCTGGATGGGGATAGTCAGAGAGCTAAGTAAGCATCAGGCATCGCTCCTCATCCCACTCTAAGCCTGCTCTTCTTTCTCTGCCAGGTGAGTGTGGGACAGGTGGGGACTGACGGGTCAGTAGGGACATCCACTTCCCTGGGGTCTTTGGGGTTTGCCTAGGTCTGAAAACACTTGGTCAGGGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-344-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTTCTCTGCCAGGTGAGTGTGGGAC
siRNA sets
GTCCCACACTCACCTGGCA
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
0.685741788
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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