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mmu_ciHerpud2_409
Basic information of circular RNA
PanCircBase ID:
mmu_ciHerpud2_409
mm39_Chr. Position ID:
chr9|25020326|25020735|-
Gene name:
Herpud2
Transcript:
ENSMUST00000008573.9
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
7
Exon/intron offsets:
0
Genomic length:
409
Exon/intron sizes in nt:
409
Flanking exon/introns:
chr9:25020301-25020735
Splice length:
409
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAGGTTGTGGATGTTTGTGTAGATTTTAAAGGTAGATAGTCCTCAGCCCTACACGAGACAGAAATGACAGGCCTTGGATGCTCCGTAGATACCTGTGGAAAGCTAATGTAGAAACTGTGGTAGATTCATTTGGGTTCTTAACATATAGTACAGAGTCAGTCATAGCTTATGTTAGGATAAGTAGGAAAGATTAGCCTCCAAAAATCATCTGGAAGGAAAATTATGCCTGTGGTAAAATGTATGATACTGGCAGTTATTTGCACACTGCATAATTTATAAATGCTAGACTTCACAAAGGTTACTAATGGCCCTGGATCAACCATTAGACTGACACACCCAGGTTTCTTCTTGCTACAGAGTATTAGCCCTCTGCTGTTATAGGATTGTGTTTGTGGCACGGATTACTCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GACTGACACACCCAGGTTTCT
59.86
TCTGTCTCGTGTAGGGCTGA
59.96
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGACTGACACACCCAGGTTTC
59.86
TCTGTCTCGTGTAGGGCTGA
59.96
147
PCR template sequence:
CCCTGGATCAACCATTAGACTGACACACCCAGGTTTCTTCTTGCTACAGAGTATTAGCCCTCTGCTGTTATAGGATTGTGTTTGTGGCACGGATTACTCAGTAGGTTGTGGATGTTTGTGTAGATTTTAAAGGTAGATAGTCCTCAGCCCTACACGAGACAGAAATGACAGGCCTTGGATGCTCCGTAGATACCTGTGGA
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-19b-3p(1), mmu-miR-19a-3p(1), mmu-miR-298-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CACGGATTACTCAGTAGGTTGTGGAT
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
0.619539922
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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