top of page
mmu_circAktip_484
Basic information of circular RNA
PanCircBase ID:
mmu_circAktip_484
mm39_Chr. Position ID:
chr8|91853301|91857780|-
Gene name:
Aktip
Transcript:
ENSMUST00000120213.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,5,4,3
Exon/intron offsets:
0,191,2926,4367
Genomic length:
4479
Exon/intron sizes in nt:
10,16,52,06,112
Flanking exon/introns:
chr8:91852914-91853301|chr8:91857780-91858550
Splice length:
484
Other database IDs:
circAtlas: hsa-AKTIP_0003
Human Ortholog IDs:
Mature spliced Sequence:
GCAGTGTGAATGCTGAGGACAGAAGAGTTTGATGACACAGCGCTGAAGTTCTTTGTGTGGAGCACACGTAATGAACCCTTTGTGGAGCATGTCTGCAGGCTCTGTGCGCAAACGAGCTGAAGGTGAAGAGAAGACATTAGCAGGAGATGTGAAAACCAGTCCTCCACGAAGTGCACCCAAAAAACAGCTACCTTCTATTCCCAAAAATGCTCTACCCATAGCGAAGCCTACGTCTCCTGCCCCAGCAGCGCAGTCAACAAACGGCACCCATGCCTCTTATGGACCCTTCTACCTGGAATATTCGCTTCTTGCAGAATTTACTCTGGTAGTGAAGCAGAAGCTGCCAGGAGTCTACGTACAGCCATCTTACCGCTCTGCATTAGTGTGGTTTGGAGTAATATTCATACGGCACGGGCTGTATCAGGATGGCGTATTCAAATTTACGGTGTATATTCCTGATAACTATCCTGATGGCGACTGTCCG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CACGGGCTGTATCAGGATGG
60.25
AGACATGCTCCACAAAGGGT
59.23
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CACGGGCTGTATCAGGATGG
60.25
GGGTTCATTACGTGTGCTCC
58.92
153
PCR template sequence:
GTGGTTTGGAGTAATATTCATACGGCACGGGCTGTATCAGGATGGCGTATTCAAATTTACGGTGTATATTCCTGATAACTATCCTGATGGCGACTGTCCGGCAGTGTGAATGCTGAGGACAGAAGAGTTTGATGACACAGCGCTGAAGTTCTTTGTGTGGAGCACACGTAATGAACCCTTTGTGGAGCATGTCTGCAGGC
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-let-7e-5p(1), mmu-let-7d-5p(1), mmu-miR-29b-1-5p(1), mmu-miR-377-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGGCGACTGTCCGGCAGTGTGAATGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAKTIP_484_ORF_1
0.9613
0.156479558
0.55334965
423
ORF sequence:
ATGAACCCTTTGTGGAGCATGTCTGCAGGCTCTGTGCGCAAACGAGCTGAAGGTGAAGAGAAGACATTAGCAGGAGATGTGAAAACCAGTCCTCCACGAAGTGCACCCAAAAAACAGCTACCTTCTATTCCCAAAAATGCTCTACCCATAGCGAAGCCTACGTCTCCTGCCCCAGCAGCGCAGTCAACAAACGGCACCCATGCCTCTTATGGACCCTTCTACCTGGAATATTCGCTTCTTGCAGAATTTACTCTGGTAGTGAAGCAGAAGCTGCCAGGAGTCTACGTACAGCCATCTTACCGCTCTGCATTAGTGTGGTTTGGAGTAATATTCATACGGCACGGGCTGTATCAGGATGGCGTATTCAAATTTACGGTGTATATTCCTGATAACTATCCTGATGGCGACTGTCCGGCAGTGTGA
Peptide sequence:
MNPLWSMSAGSVRKRAEGEEKTLAGDVKTSPPRSAPKKQLPSIPKNALPIAKPTSPAPAAQSTNGTHASYGPFYLEYSLLAEFTLVVKQKLPGVYVQPSYRSALVWFGVIFIRHGLYQDGVFKFTVYIPDNYPDGDCPAV
IRESfinder result
IRESfinder score
0.284224117
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page