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mmu_circRnf8_313
Basic information of circular RNA
PanCircBase ID:
mmu_circRnf8_313
mm39_Chr. Position ID:
chr17|29853634|29854996|+
Gene name:
Rnf8
Transcript:
ENSMUST00000024817.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
6,7
Exon/intron offsets:
0,1157
Genomic length:
1362
Exon/intron sizes in nt:
108,205
Flanking exon/introns:
chr17:29850734-29853634|chr17:29854996-29860189
Splice length:
313
Other database IDs:
CIRCpedia: MMU_CIRCpedia_222626, circAtlas: mmu-Gm28043_0007
Human Ortholog IDs:
Mature spliced Sequence:
GAAGAAAAGGACAAGGTGCAAGCGCAGAAGGAGGAGGTTCTCAGCCACATGAACGACTTGCTGGAGAACGAGCTCCAGTGCATTATCTGCTCGGAGTACTTTATTGAGGCTGTCACCCTGAACTGTGCCCACAGTTTCTGCTCCTTCTGTATCAATGAATGGATGAAACGGAAAGTAGAGTGTCCCATTTGTCGAAAGGACATTGAGTCCAGAACCAACTCCCTGGTTCTGGACAACTGCATTAGTAAGATGGTGGATAACCTAAGCTCAGACGTGAAGGAAAGAAGAAGTGTCCTTATTAGGGAACGGAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACTCCCTGGTTCTGGAC
59.96
AGCTCGTTCTCCAGCAAGTC
60.04
173
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAACTCCCTGGTTCTGGAC
59.96
GAGCTCGTTCTCCAGCAAGT
60.04
174
PCR template sequence:
ACCAACTCCCTGGTTCTGGACAACTGCATTAGTAAGATGGTGGATAACCTAAGCTCAGACGTGAAGGAAAGAAGAAGTGTCCTTATTAGGGAACGGAGAGGAAGAAAAGGACAAGGTGCAAGCGCAGAAGGAGGAGGTTCTCAGCCACATGAACGACTTGCTGGAGAACGAGCTCCAGTGCATTATCTGCTCGGAGTACT
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-93-5p(1), mmu-miR-181b-5p(1), mmu-miR-382-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGGAACGGAGAGGAAGAAAAGGACA
siRNA sets
TTTTCTTCCTCTCCGTTCC, TGTCCTTTTCTTCCTCTCC, GTCCTTTTCTTCCTCTCCG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCRNF8_313_ORF_1
0.7091
0.175411528
0.36878113
372
ORF sequence:
ATGAACGACTTGCTGGAGAACGAGCTCCAGTGCATTATCTGCTCGGAGTACTTTATTGAGGCTGTCACCCTGAACTGTGCCCACAGTTTCTGCTCCTTCTGTATCAATGAATGGATGAAACGGAAAGTAGAGTGTCCCATTTGTCGAAAGGACATTGAGTCCAGAACCAACTCCCTGGTTCTGGACAACTGCATTAGTAAGATGGTGGATAACCTAAGCTCAGACGTGAAGGAAAGAAGAAGTGTCCTTATTAGGGAACGGAGAGGAAGAAAAGGACAAGGTGCAAGCGCAGAAGGAGGAGGTTCTCAGCCACATGAACGACTTGCTGGAGAACGAGCTCCAGTGCATTATCTGCTCGGAGTACTTTATTGA
Peptide sequence:
MNDLLENELQCIICSEYFIEAVTLNCAHSFCSFCINEWMKRKVECPICRKDIESRTNSLVLDNCISKMVDNLSSDVKERRSVLIRERRGRKGQGASAEGGGSQPHERLAGERAPVHYLLGVLY
IRESfinder result
IRESfinder score
0.488021305
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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