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mmu_circGrk5_209
Basic information of circular RNA
PanCircBase ID:
mmu_circGrk5_209
mm39_Chr. Position ID:
chr19|60976139|61020302|+
Gene name:
Grk5
Transcript:
ENSMUST00000003313.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,44050
Genomic length:
44163
Exon/intron sizes in nt:
96,113
Flanking exon/introns:
chr19:60879069-60976139|chr19:61020302-61034514
Splice length:
209
Other database IDs:
circAtlas: mmu-Grk5_0004
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_361883
Human Ortholog IDs:
Mature spliced Sequence:
GGGGTGGAGGAAAGCGCAAAGGGAAAAGCAAGAAGTGGAAGGAAATCCTGAAGTTTCCTCACATCAGCCAGTGTGAAGACCTCCGAAGGACCATAGACAGAGATTACTACAGTCTATGTGACAAGCAACCAATTGGGAGACTGCTTTTTCGACAGTTCTGTGAAACCAGGCCTGGGCTGGAGTGCTACATTCAGTTCCTGGACTTAGTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACCAATTGGGAGACTGC
59.76
TGGTCCTTCGGAGGTCTTCA
60.18
178
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAACCAATTGGGAGACTGC
59.76
GGTCCTTCGGAGGTCTTCAC
59.75
177
PCR template sequence:
CAGTCTATGTGACAAGCAACCAATTGGGAGACTGCTTTTTCGACAGTTCTGTGAAACCAGGCCTGGGCTGGAGTGCTACATTCAGTTCCTGGACTTAGTGGGGGTGGAGGAAAGCGCAAAGGGAAAAGCAAGAAGTGGAAGGAAATCCTGAAGTTTCCTCACATCAGCCAGTGTGAAGACCTCCGAAGGACCATAGACAG
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-211-5p(1), mmu-miR-204-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-29b-2-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CCTGGACTTAGTGGGGGTGGAGGAAA
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
0.506610797
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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