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mmu_circKifap3_443
Basic information of circular RNA
PanCircBase ID:
mmu_circKifap3_443
mm39_Chr. Position ID:
chr1|163653256|163676330|+
Gene name:
Kifap3
Transcript:
ENSMUST00000027877.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
9,10,11
Exon/intron offsets:
0,3445,22973
Genomic length:
23074
Exon/intron sizes in nt:
17,91,63,101
Flanking exon/introns:
chr1:163645500-163653256|chr1:163676330-163683604
Splice length:
443
Other database IDs:
circAtlas: mmu-Kifap3_0005
circBase: hsa_circ_0015188, circAtlas: hsa-SCAF8_0001
Human Ortholog IDs:
Mature spliced Sequence:
TTGCTCTCTACTTGCTTTTGAATCTTGCGGAGGACACACGTACAGAACTGAAGATGAGGAACAAGAATATCGTTCACATGTTGGTGAAGGCTCTTGATCGGGACAATTTTGAGCTGCTGATTCTGGTCGTGTCATTCTTAAAGAAACTGAGTATTTTTATGGAGAATAAAAATGACATGGTAGAGATGGATATTGTTGAAAAACTGGTAAAAATGATACCCTGTGAGCATGAAGATCTCCTGAATATCACCCTCCGGCTCCTCTTAAACCTCTCGTTTGACACAGGCCTGAGGAACAAGATGGTACAAGTTGGGCTTCTCCCAAAGCTCACTGCACTCCTGGGCAATGAAAACTACAAACAAATAGCAATGTGTGTGCTTTACCATATAAGCATGGATGACCGCTTTAAGTCAATGTTTGCATATACTGACTGCATACCACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GCATGGATGACCGCTTTAAGT
58.98
AGAGCCTTCACCAACATGTGA
59.58
147
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCATGGATGACCGCTTTAAGTC
59.97
AGAGCCTTCACCAACATGTGA
59.58
147
PCR template sequence:
CAATGAAAACTACAAACAAATAGCAATGTGTGTGCTTTACCATATAAGCATGGATGACCGCTTTAAGTCAATGTTTGCATATACTGACTGCATACCACAGTTGCTCTCTACTTGCTTTTGAATCTTGCGGAGGACACACGTACAGAACTGAAGATGAGGAACAAGAATATCGTTCACATGTTGGTGAAGGCTCTTGATCG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-335-5p(1), mmu-miR-425-5p(1), mmu-miR-297a-5p(1), mmu-miR-5101(1)
siRNAs for circular RNA silencing
Junction sequence
CTGCATACCACAGTTGCTCTCTACTT
siRNA sets
AAGTAGAGAGCAACTGTGG, AGTAGAGAGCAACTGTGGT, GAGAGCAACTGTGGTATGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCKIFAP3_443_ORF_1
1.2036
0.102400817
0.588809447
411
ORF sequence:
ATGAGGAACAAGAATATCGTTCACATGTTGGTGAAGGCTCTTGATCGGGACAATTTTGAGCTGCTGATTCTGGTCGTGTCATTCTTAAAGAAACTGAGTATTTTTATGGAGAATAAAAATGACATGGTAGAGATGGATATTGTTGAAAAACTGGTAAAAATGATACCCTGTGAGCATGAAGATCTCCTGAATATCACCCTCCGGCTCCTCTTAAACCTCTCGTTTGACACAGGCCTGAGGAACAAGATGGTACAAGTTGGGCTTCTCCCAAAGCTCACTGCACTCCTGGGCAATGAAAACTACAAACAAATAGCAATGTGTGTGCTTTACCATATAAGCATGGATGACCGCTTTAAGTCAATGTTTGCATATACTGACTGCATACCACAGTTGCTCTCTACTTGCTTTTGA
Peptide sequence:
MRNKNIVHMLVKALDRDNFELLILVVSFLKKLSIFMENKNDMVEMDIVEKLVKMIPCEHEDLLNITLRLLLNLSFDTGLRNKMVQVGLLPKLTALLGNENYKQIAMCVLYHISMDDRFKSMFAYTDCIPQLLSTCF
IRESfinder result
IRESfinder score
0.657984455
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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