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mmu_circAcsl3_275
Basic information of circular RNA
PanCircBase ID:
mmu_circAcsl3_275
mm39_Chr. Position ID:
chr1|78671912|78673921|+
Gene name:
Acsl3
Transcript:
ENSMUST00000035779.15
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
7,8
Exon/intron offsets:
0,1885
Genomic length:
2009
Exon/intron sizes in nt:
1,51,124
Flanking exon/introns:
chr1:78669937-78671912|chr1:78673921-78674145
Splice length:
275
Other database IDs:
circAtlas: mmu-Acsl3_0010
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_39829
Human Ortholog IDs:
Mature spliced Sequence:
AAAAGAAAGCTCACAGCAAACCACTGCCCTCAGATATTGCAGTAATCATGTACACAAGTGGGTCCACAGGAATTCCAAAGGGAGTCATGATCTCACACAGCAACATCATTGCTTCTATAACGGGGATGGCGAGAAGGATTCCAAGACTGGGAGAGGAAGATGTGTATATTGGCTACTTGCCCCTGGCACATGTTCTAGAATTAAGTGCTGAGCTTGTGTGTCTTTCTCATGGATGCCGAATCGGCTACTCTTCACCACAGACATTAGCAGATCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCTGAGCTTGTGTGTCT
59.53
TTCCTGTGGACCCACTTGTG
59.82
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGTGCTGAGCTTGTGTGTCT
59.53
TGGAATTCCTGTGGACCCAC
59.6
149
PCR template sequence:
CTTGCCCCTGGCACATGTTCTAGAATTAAGTGCTGAGCTTGTGTGTCTTTCTCATGGATGCCGAATCGGCTACTCTTCACCACAGACATTAGCAGATCAGAAAAGAAAGCTCACAGCAAACCACTGCCCTCAGATATTGCAGTAATCATGTACACAAGTGGGTCCACAGGAATTCCAAAGGGAGTCATGATCTCACACAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
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-669d-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ATTAGCAGATCAGAAAAGAAAGCTCA
siRNA sets
TTTCTTTTCTGATCTGCTA, CTTTCTTTTCTGATCTGCT, GCTTTCTTTTCTGATCTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACSL3_275_ORF_1
0.7648
0.127443492
0.265439364
318
ORF sequence:
ATGCCGAATCGGCTACTCTTCACCACAGACATTAGCAGATCAGAAAAGAAAGCTCACAGCAAACCACTGCCCTCAGATATTGCAGTAATCATGTACACAAGTGGGTCCACAGGAATTCCAAAGGGAGTCATGATCTCACACAGCAACATCATTGCTTCTATAACGGGGATGGCGAGAAGGATTCCAAGACTGGGAGAGGAAGATGTGTATATTGGCTACTTGCCCCTGGCACATGTTCTAGAATTAAGTGCTGAGCTTGTGTGTCTTTCTCATGGATGCCGAATCGGCTACTCTTCACCACAGACATTAGCAGATCAG
Peptide sequence:
MPNRLLFTTDISRSEKKAHSKPLPSDIAVIMYTSGSTGIPKGVMISHSNIIASITGMARRIPRLGEEDVYIGYLPLAHVLELSAELVCLSHGCRIGYSSPQTLADQ
IRESfinder result
IRESfinder score
0.562872691
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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