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mmu_circSlc9a8_424
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc9a8_424
mm39_Chr. Position ID:
chr2|167283048|167293270|+
Gene name:
Slc9a8
Transcript:
ENSMUST00000047815.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
4,5,6,7,8
Exon/intron offsets:
0,2320,4377,5373,10078
Genomic length:
10222
Exon/intron sizes in nt:
5,98,41,02,35,144
Flanking exon/introns:
chr2:167276782-167283048|chr2:167293270-167299246
Splice length:
424
Other database IDs:
circAtlas: mmu-Slc9a8_0004
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_366179
Human Ortholog IDs:
Mature spliced Sequence:
GTATTCTCATGGGAGCAGTAATAAAAGTTATAGAGTTTAAAAAGCTGGCAAATTGGAAGGAGGAAGAAATGTTTCGCCCCAACATGTTTTTCCTTCTCTTGCTCCCACCTATTATCTTTGAGTCAGGATACTCACTGCACAAGGGGAACTTCTTTCAGAACATCGGTTCCATCACTCTCTTCGCTGTCTTTGGAACGGCAATCTCGGCTTTTGTAGTAGGTGGAGGAATTTACTTTCTGGGTCAGGCTGATGTAATCTCTAAACTCAACATGACAGACAGTTTCGCATTTGGCTCCCTGATATCTGCAGTCGACCCAGTCGCCACTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TTTCAACGCACTGCATGTGG
59.97
CCTCCTTCCAATTTGCCAGC
59.47
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CATGTGGACCCTGTGCTCAA
60.25
CCTCCTTCCAATTTGCCAGC
59.47
140
PCR template sequence:
CTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAAGTATTCTCATGGGAGCAGTAATAAAAGTTATAGAGTTTAAAAAGCTGGCAAATTGGAAGGAGGAAGAAATGTTTCGCCCCAACATGTTTTTCCTTCTCTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-705(1)
siRNAs for circular RNA silencing
Junction sequence
TCGTCCTCACCAAGTATTCTCATGGG
siRNA sets
AGAATACTTGGTGAGGACG, TGAGAATACTTGGTGAGGA, GAGAATACTTGGTGAGGAC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC9A8_424_ORF_1
1.0631
0.147701612
0.713342738
498
ORF sequence:
ATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAAGTATTCTCATGGGAGCAGTAATAAAAGTTATAGAGTTTAAAAAGCTGGCAAATTGGAAGGAGGAAGAAATGTTTCGCCCCAACATGTTTTTCCTTCTCTTGCTCCCACCTATTATCTTTGAGTCAGGATACTCACTGCACAAGGGGAACTTCTTTCAGAACATCGGTTCCATCACTCTCTTCGCTGTCTTTGGAACGGCAATCTCGGCTTTTGTAGTAGGTGGAGGAATTTACTTTCTGGGTCAGGCTGATGTAATCTCTAAACTCAACATGACAGACAGTTTCGCATTTGGCTCCCTGATATCTGCAGTCGACCCAGTCGCCACTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACC
Peptide sequence:
MWTLCSTCWCLEKAFSTMQSPSSSPSILMGAVIKVIEFKKLANWKEEEMFRPNMFFLLLLPPIIFESGYSLHKGNFFQNIGSITLFAVFGTAISAFVVGGGIYFLGQADVISKLNMTDSFAFGSLISAVDPVATIAIFNALHVDPVLNMLVFGESILNDAVSIVLT
IRESfinder result
IRESfinder score
0.729783293
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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