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mmu_circAcsl3_706
Basic information of circular RNA
PanCircBase ID:
mmu_circAcsl3_706
mm39_Chr. Position ID:
chr1|78659309|78668095|+
Gene name:
Acsl3
Transcript:
ENSMUST00000035779.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
3,4,5
Exon/intron offsets:
0,6644,8676
Genomic length:
8786
Exon/intron sizes in nt:
41,81,78,110
Flanking exon/introns:
chr1:78640997-78659309|chr1:78668095-78669798
Splice length:
706
Other database IDs:
circAtlas: mmu-Acsl3_0009
Human Ortholog IDs:
Mature spliced Sequence:
ATTCTCATTGAAATCTGTTAATTCTATTTTTTGAACACTTATGAATAACCACGTATCTTCAACACCATCAACCATGAAGCTAAAACAAACCATCAACCCCATACTTTTATATTTCATACATTTTATAATATCACTCTATACTATTTTAACATACATCCCATTTTATTTTTTGTGTGAGTCAAAACAAGAGAAACCAAACCAAATTAAAGCAAAACCTGTCAGTTCCAAACCGGACTCTGCATACAGATCTATCAACAGTGTGGATGGCTTGGCTTCAGTGCTGTATCCTGGCTGCGATACACTTGATAAAGTCTTTATGTATGCAAAAAACAAATTTAAAAACAAAAGACTATTGGGAACACGTGAAATTTTAAATGAGGAAGATGAAATACAGCCAAATGGAAAAATTTTTAAAAAGGTTATTCTGGGGCACTATAATTGGCTTTCCTATGAAGATGTCTTCATCCGAGCCCTTGACTTTGGAAATGGGTTACAAATGTTGGGCCAGAAACCAAAGGCCAACATCGCCATCTTCTGTGAGACCAGGGCTGAGTGGATGATCGCTGCACAGGCGTGTTTTATGTATAACTTCCAGCTTGTTACACTGTATGCTACTCTGGGAGGTCCAGCCATTGTTCATGGACTGAATGAGACAGAGGTGACCAACATCATTACTAGCAAAGAACTCTTGCAAACAAAGCTGAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGTCCAGCCATTGTTCA
59.96
GCTTCATGGTTGATGGTGTTGA
59.44
167
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGTCCAGCCATTGTTCA
59.96
AGCTTCATGGTTGATGGTGTTG
59.44
168
PCR template sequence:
GTATGCTACTCTGGGAGGTCCAGCCATTGTTCATGGACTGAATGAGACAGAGGTGACCAACATCATTACTAGCAAAGAACTCTTGCAAACAAAGCTGAAGATTCTCATTGAAATCTGTTAATTCTATTTTTTGAACACTTATGAATAACCACGTATCTTCAACACCATCAACCATGAAGCTAAAACAAACCATCAACCCC
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-9-5p(1), mmu-miR-466d-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AACAAAGCTGAAGATTCTCATTGAAA
siRNA sets
TTTCAATGAGAATCTTCAG, TTCAATGAGAATCTTCAGC, ATGAGAATCTTCAGCTTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACSL3_706_ORF_1
0.7677
0.005925868
0.756459693
687
ORF sequence:
ATGAATAACCACGTATCTTCAACACCATCAACCATGAAGCTAAAACAAACCATCAACCCCATACTTTTATATTTCATACATTTTATAATATCACTCTATACTATTTTAACATACATCCCATTTTATTTTTTGTGTGAGTCAAAACAAGAGAAACCAAACCAAATTAAAGCAAAACCTGTCAGTTCCAAACCGGACTCTGCATACAGATCTATCAACAGTGTGGATGGCTTGGCTTCAGTGCTGTATCCTGGCTGCGATACACTTGATAAAGTCTTTATGTATGCAAAAAACAAATTTAAAAACAAAAGACTATTGGGAACACGTGAAATTTTAAATGAGGAAGATGAAATACAGCCAAATGGAAAAATTTTTAAAAAGGTTATTCTGGGGCACTATAATTGGCTTTCCTATGAAGATGTCTTCATCCGAGCCCTTGACTTTGGAAATGGGTTACAAATGTTGGGCCAGAAACCAAAGGCCAACATCGCCATCTTCTGTGAGACCAGGGCTGAGTGGATGATCGCTGCACAGGCGTGTTTTATGTATAACTTCCAGCTTGTTACACTGTATGCTACTCTGGGAGGTCCAGCCATTGTTCATGGACTGAATGAGACAGAGGTGACCAACATCATTACTAGCAAAGAACTCTTGCAAACAAAGCTGAAGATTCTCATTGAAATCTGTTAA
Peptide sequence:
MNNHVSSTPSTMKLKQTINPILLYFIHFIISLYTILTYIPFYFLCESKQEKPNQIKAKPVSSKPDSAYRSINSVDGLASVLYPGCDTLDKVFMYAKNKFKNKRLLGTREILNEEDEIQPNGKIFKKVILGHYNWLSYEDVFIRALDFGNGLQMLGQKPKANIAIFCETRAEWMIAAQACFMYNFQLVTLYATLGGPAIVHGLNETEVTNIITSKELLQTKLKILIEIC
IRESfinder result
IRESfinder score
0.776878016
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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