top of page
mmu_ciSlx4_879
Basic information of circular RNA
PanCircBase ID:
mmu_ciSlx4_879
mm39_Chr. Position ID:
chr16|3805957|3806836|-
Gene name:
Slx4
Transcript:
ENSMUST00000146569.8
CircRNA type:
Circular intronic (ci)RNA
Exon/Intron count:
1
Exon/intron indexes:
1
Exon/intron offsets:
0
Genomic length:
879
Exon/intron sizes in nt:
879
Flanking exon/introns:
chr16:3805945-3806836
Splice length:
879
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GTAAGTACGCAGGCCTGGGAGCCCACCACCTCCCCTCCCTCTCCCTTTGCTTTTCCCTCCCTCCATTTGTATTTGCATCACTGTGAGACTCCTGATCACCCTCTCTCTGTATTGGAGCATCACATTCTTGCTTCAGTCTCACATTATAGGCTTGAGCCACCACACAGGAATCCAGCACACTGCTTGATCTGCGTCAGGAAGTCCCAGACACAAGAGTGTCTGATCTTTTAGTACTGCAGGGTGATATTATCATCTGCAAATGTATTGGGCCATATTCATGTCTATCTTGCACTCGTGTGCAACTAAACTTTTTATCTACTTTGTGGGTTCTTTCTTCCACCCACCTAACACTGGGTAGGAGAGAAAAAAGGGTAGAGGGGAAAAGGGGTGACAATATCGTTAGTCTACTTCCTACTGATTGAGGCAAGTTTGATCTTCTCTGTCAGCATGTCTCATTTCTTCTTTCCATATCTTCACACATGACTATCTGACAAACCACAACCACCAGCCGGCCAGCCCCTTGTATTGTGGCTCTAGCATTTATAGATCCTCTAAAAAGTCCTCAGCACTCCAAACGCCACTGCAGAACACAAGGCAAATCACAGCCAGCTGCTGTGGACAGTCTGAAGCAGCCCCACATCCCACAGCTGGGATTAAAACAAAAACATCCTTATATTTCTGTGTTTTAAAGAAACCAAAATTCTCACTATACTCATGCAATCCATAGACCCAAGTCAGATATGCTTAGAGTCCATGATACCTCTGTCAGGTGGAAGCTGACCTTAAACATCCATCCAGACTACAGAAACTGGCCAAGACTGCTTCCTACCCCTCAGGTAGGATCTCAGGCTGTCAGAGGCTAAAGCCAGACTCTTGTTT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAACTGGCCAAGACTGCT
59.52
TGGAGGGAGGGAAAAGCAAA
59.14
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGAAACTGGCCAAGACTGC
59.4
TGGAGGGAGGGAAAAGCAAA
59.14
142
PCR template sequence:
ACCTTAAACATCCATCCAGACTACAGAAACTGGCCAAGACTGCTTCCTACCCCTCAGGTAGGATCTCAGGCTGTCAGAGGCTAAAGCCAGACTCTTGTTTGTAAGTACGCAGGCCTGGGAGCCCACCACCTCCCCTCCCTCTCCCTTTGCTTTTCCCTCCCTCCATTTGTATTTGCATCACTGTGAGACTCCTGATCACC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-138-5p(1), mmu-miR-381-3p(1), mmu-miR-130b-3p(1), mmu-miR-466a-5p(1), mmu-miR-1187(1), mmu-miR-466p-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CAGACTCTTGTTTGTAAGTACGCAGG
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
0.812125899
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page