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mmu_circSytl5_326
Basic information of circular RNA
PanCircBase ID:
mmu_circSytl5_326
mm39_Chr. Position ID:
chrX|9771756|9780257|+
Gene name:
Sytl5
Transcript:
ENSMUST00000067529.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
2,3
Exon/intron offsets:
0,8385
Genomic length:
8501
Exon/intron sizes in nt:
210,116
Flanking exon/introns:
chrX:9752018-9771756|chrX:9780257-9781744
Splice length:
326
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAAGCTGAAAAATGAACTCTTAGAAGCAAAGCGTAGGAGTGGGAAGACTCACCAAGAGGCCAGTAGAGTCTGCGTTCACTGTCACAAAACCCTTGGCCTCATCTTTGACCGGGGAGATCCATGCCAAGCCTGCTCACTCAGGGTATGCAGTGAGTGTCGAGTCACCGGACTTGATGGCAGCTGGAAGTGCACTGTCTGTGCCAAAGTCGCGCAGCTAAGGATTATAAGTGGAGAATGGTTCTTGGAAGAAAAGGCAAAGCGTTTCAAGCAAGTCAATGTTCTGGGCACTGATGTCGTTCGACAGTCCATCTTAAGAAGAAGTCCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCTGGGCACTGATGTCGTTC
60.04
AGGCCAAGGGTTTTGTGACA
60.03
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTCTGGGCACTGATGTCG
60.32
AGGCCAAGGGTTTTGTGACA
60.03
149
PCR template sequence:
AGTGGAGAATGGTTCTTGGAAGAAAAGGCAAAGCGTTTCAAGCAAGTCAATGTTCTGGGCACTGATGTCGTTCGACAGTCCATCTTAAGAAGAAGTCCAGGAAGCTGAAAAATGAACTCTTAGAAGCAAAGCGTAGGAGTGGGAAGACTCACCAAGAGGCCAGTAGAGTCTGCGTTCACTGTCACAAAACCCTTGGCCTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-148a-3p(1), mmu-miR-128-3p(1), mmu-miR-351-5p(1), mmu-miR-96-5p(1), mmu-miR-3087-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGAAGAAGTCCAGGAAGCTGAAAAAT
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
0.428435972
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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