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mmu_circAcox1_1107
Basic information of circular RNA
PanCircBase ID:
mmu_circAcox1_1107
mm39_Chr. Position ID:
chr11|116065118|116071232|-
Gene name:
Acox1
Transcript:
ENSMUST00000130229.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
9,8,7,6,5,4,3
Exon/intron offsets:
0,338,695,912,3827,4389,5998
Genomic length:
6114
Exon/intron sizes in nt:
20,71,44,10,61,80,19,10,00,000
Flanking exon/introns:
chr11:116064424-116065118|chr11:116071232-116071768
Splice length:
1107
Other database IDs:
CIRCpedia: MMU_CIRCpedia_3968, circAtlas: mmu-Acox1_0010
circBase: hsa_circ_0045745
Human Ortholog IDs:
Mature spliced Sequence:
GCATCACTGTTGGGGATATCGGCCCCAAGTTTGGTTATGAAGAGATGGATAATGGCTACCTGAAGATGGACAATTACCGTATTCCTAGAGAGAACATGTTGATGAAATATGCCCAGCGAGCCAGAGCCCCAGATTTTGGATTTTCAGACGCAGCAGTATAAACTCTTCCCGCTCCTGGCCACCGCCTATGCCTTCCACTTTCTCGGAAGATACATAAAGGAGACCTACATGCGGATTAATGAGAGCATTGGCCAAGGCGACCTGAGTGAGCTGCCTGAGCTTCATGCCCTCACAGCTGGGCTGAAGGCTTTTACTACCTGGACAGCCAATGCTGGTATCGAAGAATGTCGGATGGCTTGCGGTGGGCACGGCTATTCTCACAGCAGTGGGATTCCAAATATTTACGTCACGTTTACCCCGGCCTGCACCTTCGAGGGGGAGAACACTGTTATGATGCTGCAGACGGCCAGGTTCTTGATGAAAATCTATGACCAGGTTCAGTCGGGGAAGCTGGTGGGTGGTATGGTGTCGTACTTGAATGACCTGCCGAGCCAGCGTATCCAGCCGCAGCAGGTGGCAGTCTGGCCAACTCTGGTGGACATTAACAGCCTGGACAGCCTGACAGAAGCCTACAAGCTACGTGCAGCCAGATTGGTAGAAATTGCTGCAAAAAACCTTCAGGCCCAAGTGAGTCACAGGAAGAGCAAGGAAGTGGCGTGGAACTTGACTTCTGTCGACCTTGTTCGCGCAAGTGAGGCGCACTGCCACTACGTGACCGTTAAGGTCTTTGCAGATAAACTCCCCAAGATTCAAGACAGAGCCGTGCAAGCCGTGCTGAGGAACCTGTGTCTCTTATATTCTCTCTATGGGATCAGCCAGAAAGGAGGGGATTTTCTTGAGGGGAACATCATCACAGGGGCTCAGATGTCACAGGTAAACAGTCGGATCCTGGAGCTGCTCACAGTGACTCGCCCCAACGCTGTGGCTTTGGTGGATGCCTTTGACTTTAAGGATGTGACCCTTGGCTCTGTTCTCGGCCGCTATGATGGCAATGTGTATGAAAACTTGTTTGAGTGGGCCAAGAAGTCCCCACTGAACAAGACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CTGTTCTCGGCCGCTATGAT
59.97
TGTCCATCTTCAGGTAGCCA
58.05
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTGACCCTTGGCTCTGTTC
59.89
TGTCCATCTTCAGGTAGCCA
58.05
166
PCR template sequence:
TAAGGATGTGACCCTTGGCTCTGTTCTCGGCCGCTATGATGGCAATGTGTATGAAAACTTGTTTGAGTGGGCCAAGAAGTCCCCACTGAACAAGACAGAGGCATCACTGTTGGGGATATCGGCCCCAAGTTTGGTTATGAAGAGATGGATAATGGCTACCTGAAGATGGACAATTACCGTATTCCTAGAGAGAACATGTT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-335-3p(2), mmu-miR-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-34a-5p(1), mmu-miR-26a-5p(1), mmu-miR-18a-5p(1), mmu-miR-149-5p(1), mmu-miR-26b-5p(1), mmu-miR-127-5p(1), mmu-miR-370-3p(1), mmu-miR-107-3p(1), mmu-miR-670-5p(1), mmu-miR-490-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GAACAAGACAGAGGCATCACTGTTGG
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACOX1_1107_ORF_1
1.2286
0.287884127
0.997072552
1062
ORF sequence:
ATGCCCAGCGAGCCAGAGCCCCAGATTTTGGATTTTCAGACGCAGCAGTATAAACTCTTCCCGCTCCTGGCCACCGCCTATGCCTTCCACTTTCTCGGAAGATACATAAAGGAGACCTACATGCGGATTAATGAGAGCATTGGCCAAGGCGACCTGAGTGAGCTGCCTGAGCTTCATGCCCTCACAGCTGGGCTGAAGGCTTTTACTACCTGGACAGCCAATGCTGGTATCGAAGAATGTCGGATGGCTTGCGGTGGGCACGGCTATTCTCACAGCAGTGGGATTCCAAATATTTACGTCACGTTTACCCCGGCCTGCACCTTCGAGGGGGAGAACACTGTTATGATGCTGCAGACGGCCAGGTTCTTGATGAAAATCTATGACCAGGTTCAGTCGGGGAAGCTGGTGGGTGGTATGGTGTCGTACTTGAATGACCTGCCGAGCCAGCGTATCCAGCCGCAGCAGGTGGCAGTCTGGCCAACTCTGGTGGACATTAACAGCCTGGACAGCCTGACAGAAGCCTACAAGCTACGTGCAGCCAGATTGGTAGAAATTGCTGCAAAAAACCTTCAGGCCCAAGTGAGTCACAGGAAGAGCAAGGAAGTGGCGTGGAACTTGACTTCTGTCGACCTTGTTCGCGCAAGTGAGGCGCACTGCCACTACGTGACCGTTAAGGTCTTTGCAGATAAACTCCCCAAGATTCAAGACAGAGCCGTGCAAGCCGTGCTGAGGAACCTGTGTCTCTTATATTCTCTCTATGGGATCAGCCAGAAAGGAGGGGATTTTCTTGAGGGGAACATCATCACAGGGGCTCAGATGTCACAGGTAAACAGTCGGATCCTGGAGCTGCTCACAGTGACTCGCCCCAACGCTGTGGCTTTGGTGGATGCCTTTGACTTTAAGGATGTGACCCTTGGCTCTGTTCTCGGCCGCTATGATGGCAATGTGTATGAAAACTTGTTTGAGTGGGCCAAGAAGTCCCCACTGAACAAGACAGAGGCATCACTGTTGGGGATATCGGCCCCAAGTTTGGTTATGAAGAGATGGATAATGGCTACCTGA
Peptide sequence:
MPSEPEPQILDFQTQQYKLFPLLATAYAFHFLGRYIKETYMRINESIGQGDLSELPELHALTAGLKAFTTWTANAGIEECRMACGGHGYSHSSGIPNIYVTFTPACTFEGENTVMMLQTARFLMKIYDQVQSGKLVGGMVSYLNDLPSQRIQPQQVAVWPTLVDINSLDSLTEAYKLRAARLVEIAAKNLQAQVSHRKSKEVAWNLTSVDLVRASEAHCHYVTVKVFADKLPKIQDRAVQAVLRNLCLLYSLYGISQKGGDFLEGNIITGAQMSQVNSRILELLTVTRPNAVALVDAFDFKDVTLGSVLGRYDGNVYENLFEWAKKSPLNKTEASLLGISAPSLVMKRWIMAT
IRESfinder result
IRESfinder score
0.373559549
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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