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mmu_circSlc6a8_497
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc6a8_497
mm39_Chr. Position ID:
chrX|72720926|72722794|+
Gene name:
Slc6a8
Transcript:
ENSMUST00000033752.14
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
4,5,6,7
Exon/intron offsets:
0,1315,1545,1743
Genomic length:
1868
Exon/intron sizes in nt:
1,33,13,51,04,125
Flanking exon/introns:
chrX:72720505-72720926|chrX:72722794-72723290
Splice length:
497
Other database IDs:
CIRCpedia: MMU_CIRCpedia_28513, circAtlas: mmu-Slc6a8_0001
Human Ortholog IDs:
Mature spliced Sequence:
GAACAAAGTATTGAGGCTCTCCACGGGGCTGGAGGTTCCAGGAGCCCTCAACTGGGAGGTGACCTTGTGCCTGCTGGCCTGCTGGGTGCTGGTCTACTTCTGTGTGTGGAAGGGGGTCAAGTCAACAGGAAAGATCGTGTACTTCACTGCTACATTCCCCTACGTGGTCCTCGTTGTGCTGCTGGTGCGAGGGGTGCTGCTGCCTGGAGCCCTGGATGGTATCATCTACTATCTCAAGCCTGACTGGTCAAAGCTAGGGTCCCCTCAGGTATGGATAGATGCTGGGACCCAGATTTTCTTCTCTTATGCCATAGGCCTGGGGGCCCTCACAGCCCTAGGCAGCTACAATCGCTTCAACAACAACTGCTACAAGGATGCCATCATCCTGGCACTCATCAACAGCGGGACCAGCTTCTTTGCTGGCTTTGTGGTCTTCTCCATCCTGGGCTTCATGGCCACAGAGCAGGGTGTGCATATCTCCAAGGTGGCAGAATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTCCATCCTGGGCTTCATGG
60.18
GAAGTAGACCAGCACCCAGC
60.39
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGCTGGCTTTGTGGTCTTCT
59.82
GAAGTAGACCAGCACCCAGC
60.39
180
PCR template sequence:
AACAGCGGGACCAGCTTCTTTGCTGGCTTTGTGGTCTTCTCCATCCTGGGCTTCATGGCCACAGAGCAGGGTGTGCATATCTCCAAGGTGGCAGAATCAGGAACAAAGTATTGAGGCTCTCCACGGGGCTGGAGGTTCCAGGAGCCCTCAACTGGGAGGTGACCTTGTGCCTGCTGGCCTGCTGGGTGCTGGTCTACTTC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-15b-5p(2), mmu-let-7a-5p(1), mmu-miR-15a-5p(1), mmu-miR-1a-3p(1), mmu-miR-206-3p(1), mmu-let-7b-5p(1), mmu-let-7c-5p(1), mmu-miR-214-3p(1), mmu-miR-362-5p(1), mmu-miR-697(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GTGGCAGAATCAGGAACAAAGTATTG
siRNA sets
CTTTGTTCCTGATTCTGCC, ACTTTGTTCCTGATTCTGC, ATACTTTGTTCCTGATTCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC6A8_497_ORF_1
0.9014
0.170551918
0.910897476
723
ORF sequence:
ATGGATAGATGCTGGGACCCAGATTTTCTTCTCTTATGCCATAGGCCTGGGGGCCCTCACAGCCCTAGGCAGCTACAATCGCTTCAACAACAACTGCTACAAGGATGCCATCATCCTGGCACTCATCAACAGCGGGACCAGCTTCTTTGCTGGCTTTGTGGTCTTCTCCATCCTGGGCTTCATGGCCACAGAGCAGGGTGTGCATATCTCCAAGGTGGCAGAATCAGGAACAAAGTATTGAGGCTCTCCACGGGGCTGGAGGTTCCAGGAGCCCTCAACTGGGAGGTGACCTTGTGCCTGCTGGCCTGCTGGGTGCTGGTCTACTTCTGTGTGTGGAAGGGGGTCAAGTCAACAGGAAAGATCGTGTACTTCACTGCTACATTCCCCTACGTGGTCCTCGTTGTGCTGCTGGTGCGAGGGGTGCTGCTGCCTGGAGCCCTGGATGGTATCATCTACTATCTCAAGCCTGACTGGTCAAAGCTAGGGTCCCCTCAGGTATGGATAGATGCTGGGACCCAGATTTTCTTCTCTTATGCCATAGGCCTGGGGGCCCTCACAGCCCTAGGCAGCTACAATCGCTTCAACAACAACTGCTACAAGGATGCCATCATCCTGGCACTCATCAACAGCGGGACCAGCTTCTTTGCTGGCTTTGTGGTCTTCTCCATCCTGGGCTTCATGGCCACAGAGCAGGGTGTGCATATCTCCAAGGTGGCAGAATCA
Peptide sequence:
MDRCWDPDFLLLCHRPGGPHSPRQLQSLQQQLLQGCHHPGTHQQRDQLLCWLCGLLHPGLHGHRAGCAYLQGGRIRNKVLRLSTGLEVPGALNWEVTLCLLACWVLVYFCVWKGVKSTGKIVYFTATFPYVVLVVLLVRGVLLPGALDGIIYYLKPDWSKLGSPQVWIDAGTQIFFSYAIGLGALTALGSYNRFNNNCYKDAIILALINSGTSFFAGFVVFSILGFMATEQGVHISKVAES
IRESfinder result
IRESfinder score
0.465538455
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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