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mmu_circSlc9a8_1129
Basic information of circular RNA
PanCircBase ID:
mmu_circSlc9a8_1129
mm39_Chr. Position ID:
chr2|167266038|167309687|+
Gene name:
Slc9a8
Transcript:
ENSMUST00000047815.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
11
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11,12
Exon/intron offsets:
0,10663,17010,19330,21387,22383,27088,33208,35530,41222,43566
Genomic length:
43649
Exon/intron sizes in nt:
179,81,59,84,102,35,144,139,106,117,83
Flanking exon/introns:
chr2:167263685-167266038|chr2:167309687-167310883
Splice length:
1129
Other database IDs:
CIRCpedia: MMU_CIRCpedia_228524, circAtlas: mmu-Slc9a8_0011
Human Ortholog IDs:
Mature spliced Sequence:
GTTCTCCAACACAACCCATGAGACCTTCAACTTCACCCTTCACACCACCTTGGGTGTCACCACGAAGCTGGTGCTGCCGACACCTGCCAAGCCTATCCTTCCGGTGCAGACGGGAGAGCAGGCCCAGCAGGAGGAGCAGTCGAGCGGCATGACCATTTTCTTCAGCCTCCTCGTCCTAGCCATCTGCATCATCCTGGTGCACCTGCTGATTCGGTACCGCCTGCACTTTCTGCCTGAGAGCGTGGCTGTGGTTTCTCTAGGTATTCTCATGGGAGCAGTAATAAAAGTTATAGAGTTTAAAAAGCTGGCAAATTGGAAGGAGGAAGAAATGTTTCGCCCCAACATGTTTTTCCTTCTCTTGCTCCCACCTATTATCTTTGAGTCAGGATACTCACTGCACAAGGGGAACTTCTTTCAGAACATCGGTTCCATCACTCTCTTCGCTGTCTTTGGAACGGCAATCTCGGCTTTTGTAGTAGGTGGAGGAATTTACTTTCTGGGTCAGGCTGATGTAATCTCTAAACTCAACATGACAGACAGTTTCGCATTTGGCTCCCTGATATCTGCAGTCGACCCAGTCGCCACTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAACACGGCTGAAGGTCTAACAAGAAAACATATGTCAGATGTCAGTGGGTGGCAAACGTTCTCACAGGCCCTTGGCTACTTCCTCAAAATGTTCTTTGGCTCCGCAGCACTTGGCACGCTGACTGGCTTGATTTCAGCATTAGTGTTGAAGCACATTGACCTGAGGAAAACGCCTTCCCTGGAGTTTGGCATGATGATCATTTTTGCTTACCTGCCATATGGGCTGGCAGAAGGAATCTCACTCTCAGGCATCATGGCGATCCTGTTTTCTGGCATCGTGATGTCACACTATACACACCATAACCTCTCCCCAGTCACCCAGATCCTCATGCAGCAGACTCTCCGAACTGTGGCCTTCCTGTGTGAAACGTGTGTGTTTGCATTTCTTGGCCTCTCCATTTTTAGTTTCCCTCACAAGTTTGAAATTTCCTTTGTCATCTGGTGCATA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGCCTTCCTGTGTGAAA
59.74
CAAGGTGGTGTGAAGGGTGA
59.82
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGGCCTTCCTGTGTGAAA
59.74
GGTGGTGTGAAGGGTGAAGT
59.82
149
PCR template sequence:
TGTGGCCTTCCTGTGTGAAACGTGTGTGTTTGCATTTCTTGGCCTCTCCATTTTTAGTTTCCCTCACAAGTTTGAAATTTCCTTTGTCATCTGGTGCATAGTTCTCCAACACAACCCATGAGACCTTCAACTTCACCCTTCACACCACCTTGGGTGTCACCACGAAGCTGGTGCTGCCGACACCTGCCAAGCCTATCCTT
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-155-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-17-5p(1), mmu-miR-106b-5p(1), mmu-miR-217-5p(1), mmu-miR-214-3p(1), mmu-miR-501-3p(1), mmu-miR-370-3p(1), mmu-miR-705(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCTGGTGCATAGTTCTCCAACACA
siRNA sets
TGTTGGAGAACTATGCACC, GTTGGAGAACTATGCACCA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCSLC9A8_1129_ORF_1
1.1553
0.185363542
0.992164387
1002
ORF sequence:
ATGACCATTTTCTTCAGCCTCCTCGTCCTAGCCATCTGCATCATCCTGGTGCACCTGCTGATTCGGTACCGCCTGCACTTTCTGCCTGAGAGCGTGGCTGTGGTTTCTCTAGGTATTCTCATGGGAGCAGTAATAAAAGTTATAGAGTTTAAAAAGCTGGCAAATTGGAAGGAGGAAGAAATGTTTCGCCCCAACATGTTTTTCCTTCTCTTGCTCCCACCTATTATCTTTGAGTCAGGATACTCACTGCACAAGGGGAACTTCTTTCAGAACATCGGTTCCATCACTCTCTTCGCTGTCTTTGGAACGGCAATCTCGGCTTTTGTAGTAGGTGGAGGAATTTACTTTCTGGGTCAGGCTGATGTAATCTCTAAACTCAACATGACAGACAGTTTCGCATTTGGCTCCCTGATATCTGCAGTCGACCCAGTCGCCACTATTGCGATTTTCAACGCACTGCATGTGGACCCTGTGCTCAACATGCTGGTGTTTGGAGAAAGCATTCTCAACGATGCAGTCTCCATCGTCCTCACCAACACGGCTGAAGGTCTAACAAGAAAACATATGTCAGATGTCAGTGGGTGGCAAACGTTCTCACAGGCCCTTGGCTACTTCCTCAAAATGTTCTTTGGCTCCGCAGCACTTGGCACGCTGACTGGCTTGATTTCAGCATTAGTGTTGAAGCACATTGACCTGAGGAAAACGCCTTCCCTGGAGTTTGGCATGATGATCATTTTTGCTTACCTGCCATATGGGCTGGCAGAAGGAATCTCACTCTCAGGCATCATGGCGATCCTGTTTTCTGGCATCGTGATGTCACACTATACACACCATAACCTCTCCCCAGTCACCCAGATCCTCATGCAGCAGACTCTCCGAACTGTGGCCTTCCTGTGTGAAACGTGTGTGTTTGCATTTCTTGGCCTCTCCATTTTTAGTTTCCCTCACAAGTTTGAAATTTCCTTTGTCATCTGGTGCATAGTTCTCCAACACAACCCATGA
Peptide sequence:
MTIFFSLLVLAICIILVHLLIRYRLHFLPESVAVVSLGILMGAVIKVIEFKKLANWKEEEMFRPNMFFLLLLPPIIFESGYSLHKGNFFQNIGSITLFAVFGTAISAFVVGGGIYFLGQADVISKLNMTDSFAFGSLISAVDPVATIAIFNALHVDPVLNMLVFGESILNDAVSIVLTNTAEGLTRKHMSDVSGWQTFSQALGYFLKMFFGSAALGTLTGLISALVLKHIDLRKTPSLEFGMMIIFAYLPYGLAEGISLSGIMAILFSGIVMSHYTHHNLSPVTQILMQQTLRTVAFLCETCVFAFLGLSIFSFPHKFEISFVIWCIVLQHNP
IRESfinder result
IRESfinder score
0.661063555
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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