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mmu_circAcsl3_996
Basic information of circular RNA
PanCircBase ID:
mmu_circAcsl3_996
mm39_Chr. Position ID:
chr1|78659309|78672063|+
Gene name:
Acsl3
Transcript:
ENSMUST00000035779.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
5
Exon/intron indexes:
3,4,5,6,7
Exon/intron offsets:
0,6644,8676,10489,12603
Genomic length:
12754
Exon/intron sizes in nt:
41,81,78,11,01,39,151
Flanking exon/introns:
chr1:78640997-78659309|chr1:78672063-78673797
Splice length:
996
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTCTCATTGAAATCTGTTAATTCTATTTTTTGAACACTTATGAATAACCACGTATCTTCAACACCATCAACCATGAAGCTAAAACAAACCATCAACCCCATACTTTTATATTTCATACATTTTATAATATCACTCTATACTATTTTAACATACATCCCATTTTATTTTTTGTGTGAGTCAAAACAAGAGAAACCAAACCAAATTAAAGCAAAACCTGTCAGTTCCAAACCGGACTCTGCATACAGATCTATCAACAGTGTGGATGGCTTGGCTTCAGTGCTGTATCCTGGCTGCGATACACTTGATAAAGTCTTTATGTATGCAAAAAACAAATTTAAAAACAAAAGACTATTGGGAACACGTGAAATTTTAAATGAGGAAGATGAAATACAGCCAAATGGAAAAATTTTTAAAAAGGTTATTCTGGGGCACTATAATTGGCTTTCCTATGAAGATGTCTTCATCCGAGCCCTTGACTTTGGAAATGGGTTACAAATGTTGGGCCAGAAACCAAAGGCCAACATCGCCATCTTCTGTGAGACCAGGGCTGAGTGGATGATCGCTGCACAGGCGTGTTTTATGTATAACTTCCAGCTTGTTACACTGTATGCTACTCTGGGAGGTCCAGCCATTGTTCATGGACTGAATGAGACAGAGGTGACCAACATCATTACTAGCAAAGAACTCTTGCAAACAAAGCTGAAGGATATAGTCTCTTTGGTCCCACGTCTGCGGCATATCATTACTGTTGATGGGAAGCCTCCAACCTGGTCTGAGTTCCCCAAAGGTGTCATTGTACACACCATGGCTGCAGTGCAGGCTCTAGGAGTGAAGGCCAACGTGGAAAAGAAAGCTCACAGCAAACCACTGCCCTCAGATATTGCAGTAATCATGTACACAAGTGGGTCCACAGGAATTCCAAAGGGAGTCATGATCTCACACAGCAACATCATTGCTTCTATAACGGGGATGGCGAGAAGGATTCCAAGACTGGG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGGTCCACAGGAATTCCA
59.6
GCTTCATGGTTGATGGTGTTGA
59.44
174
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GTGGGTCCACAGGAATTCCA
59.6
AGCTTCATGGTTGATGGTGTTG
59.44
175
PCR template sequence:
ACACAAGTGGGTCCACAGGAATTCCAAAGGGAGTCATGATCTCACACAGCAACATCATTGCTTCTATAACGGGGATGGCGAGAAGGATTCCAAGACTGGGATTCTCATTGAAATCTGTTAATTCTATTTTTTGAACACTTATGAATAACCACGTATCTTCAACACCATCAACCATGAAGCTAAAACAAACCATCAACCCC
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-9-5p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-34b-5p(1), mmu-miR-466d-3p(1), mmu-miR-29b-2-5p(1), mmu-miR-342-3p(1), mmu-miR-377-3p(1), mmu-miR-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TTCCAAGACTGGGATTCTCATTGAAA
siRNA sets
TTTCAATGAGAATCCCAGT,ATGAGAATCCCAGTCTTGG,TTCAATGAGAATCCCAGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACSL3_996_ORF_1
0.9276
0.038249457
0.976703731
990
ORF sequence:
ATGAATAACCACGTATCTTCAACACCATCAACCATGAAGCTAAAACAAACCATCAACCCCATACTTTTATATTTCATACATTTTATAATATCACTCTATACTATTTTAACATACATCCCATTTTATTTTTTGTGTGAGTCAAAACAAGAGAAACCAAACCAAATTAAAGCAAAACCTGTCAGTTCCAAACCGGACTCTGCATACAGATCTATCAACAGTGTGGATGGCTTGGCTTCAGTGCTGTATCCTGGCTGCGATACACTTGATAAAGTCTTTATGTATGCAAAAAACAAATTTAAAAACAAAAGACTATTGGGAACACGTGAAATTTTAAATGAGGAAGATGAAATACAGCCAAATGGAAAAATTTTTAAAAAGGTTATTCTGGGGCACTATAATTGGCTTTCCTATGAAGATGTCTTCATCCGAGCCCTTGACTTTGGAAATGGGTTACAAATGTTGGGCCAGAAACCAAAGGCCAACATCGCCATCTTCTGTGAGACCAGGGCTGAGTGGATGATCGCTGCACAGGCGTGTTTTATGTATAACTTCCAGCTTGTTACACTGTATGCTACTCTGGGAGGTCCAGCCATTGTTCATGGACTGAATGAGACAGAGGTGACCAACATCATTACTAGCAAAGAACTCTTGCAAACAAAGCTGAAGGATATAGTCTCTTTGGTCCCACGTCTGCGGCATATCATTACTGTTGATGGGAAGCCTCCAACCTGGTCTGAGTTCCCCAAAGGTGTCATTGTACACACCATGGCTGCAGTGCAGGCTCTAGGAGTGAAGGCCAACGTGGAAAAGAAAGCTCACAGCAAACCACTGCCCTCAGATATTGCAGTAATCATGTACACAAGTGGGTCCACAGGAATTCCAAAGGGAGTCATGATCTCACACAGCAACATCATTGCTTCTATAACGGGGATGGCGAGAAGGATTCCAAGACTGGGATTCTCATTGAAATCTGTTAATTCTATTTTTTGA
Peptide sequence:
MNNHVSSTPSTMKLKQTINPILLYFIHFIISLYTILTYIPFYFLCESKQEKPNQIKAKPVSSKPDSAYRSINSVDGLASVLYPGCDTLDKVFMYAKNKFKNKRLLGTREILNEEDEIQPNGKIFKKVILGHYNWLSYEDVFIRALDFGNGLQMLGQKPKANIAIFCETRAEWMIAAQACFMYNFQLVTLYATLGGPAIVHGLNETEVTNIITSKELLQTKLKDIVSLVPRLRHIITVDGKPPTWSEFPKGVIVHTMAAVQALGVKANVEKKAHSKPLPSDIAVIMYTSGSTGIPKGVMISHSNIIASITGMARRIPRLGFSLKSVNSIF
IRESfinder result
IRESfinder score
0.706843705
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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