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mmu_circIlkap_123
Basic information of circular RNA
PanCircBase ID:
mmu_circIlkap_123
mm39_Chr. Position ID:
chr1|91318328|91318919|-
Gene name:
Ilkap
Transcript:
ENSMUST00000187049.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
3,2
Exon/intron offsets:
0,525
Genomic length:
591
Exon/intron sizes in nt:
57,66
Flanking exon/introns:
chr1:91316168-91318328|chr1:91318919-91326372
Splice length:
123
Other database IDs:
CIRCpedia: MMU_CIRCpedia_34066, circAtlas: mmu-Ilkap_0020
circBase: hsa_circ_0058878, circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_40189
Human Ortholog IDs:
Mature spliced Sequence:
GGAAGGAAGCACAGGGACGACCCGTGCTCTTTGAGGACCTGCCCCCGGCCAGCAGTACTGACTCAGGCTCTGGGGGACCTTTACTCTTTGATGATCTTCCGCCTGCTGCCAGTGGCAATTCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
NA
NA
NA
NA
NA
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
NA
NA
NA
NA
NA
PCR template sequence:
TCAGGCTCTGGGGGACCTTTACTCTTTGATGATCTTCCGCCTGCTGCCAGTGGCAATTCAGGGAAGGAAGCACAGGGACGACCCGTGCTCTTTGAGGACCTGCCCCCGGCCAGCAGTACTGA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
NA
Interacting miRNAs (#binding sites)
NA
siRNAs for circular RNA silencing
Junction sequence
AGTGGCAATTCAGGGAAGGAAGCACA
siRNA sets
CTTCCTTCCCTGAATTGCC, TTCCTTCCCTGAATTGCCA, GCTTCCTTCCCTGAATTGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCILKAP_123_ORF_1
1.1416
0.277167683
0.295892986
156
ORF sequence:
ATGATCTTCCGCCTGCTGCCAGTGGCAATTCAGGGAAGGAAGCACAGGGACGACCCGTGCTCTTTGAGGACCTGCCCCCGGCCAGCAGTACTGACTCAGGCTCTGGGGGACCTTTACTCTTTGATGATCTTCCGCCTGCTGCCAGTGGCAATTCAG
Peptide sequence:
MIFRLLPVAIQGRKHRDDPCSLRTCPRPAVLTQALGDLYSLMIFRLLPVAIQ
IRESfinder result
IRESfinder score
0.703484787
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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