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mmu_circCyp4f17_590
Basic information of circular RNA
PanCircBase ID:
mmu_circCyp4f17_590
mm39_Chr. Position ID:
chr17|32741091|32743938|+
Gene name:
Cyp4f17
Transcript:
ENSMUST00000237003.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
6,7,8,9
Exon/intron offsets:
0,1884,2461,2717
Genomic length:
2847
Exon/intron sizes in nt:
12,22,71,67,130
Flanking exon/introns:
chr17:32739604-32741091|chr17:32743938-32746814
Splice length:
590
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCCAAGTGGCAGCGTCTGACCACCAAAGGAACTGCCTGTCTGGACATGTTGGAACACATCAGTCTGATGACCTTGGACAGCTTGCAGAACTGTGTGTTCAGCTTTGACAGCAACTGTCAGGAGTCTCCCAGTGAATATATTGCTGCTATTCAGGAGCTCAGCTCCCTCATAGTGAAACGGCACCACCAGCCCTTCCTGTACCTTGACTTCCTGTATTACTGCACTGCTGATGGGCGGCGCTTCCGCAAGGCCTGCGACCTGGTGCACAACTTCACAGATGCTGTCATCAGGGAGAGACGGCGCACTCTCTCCAGCCAAAATCTTGATGAGTTCCTGAAGTCGAAGACTAAGTCTAAAACCCTGGACTTCATCGATGTGCTCTTATTGGCCAAGGATGAACATGGAAAGGAGCTGTCAGATGAGGACATCCGAGCGGAGGCTGACACCTTCATGTTTGGAGGCCATGACACCACAGCCAGTGCACTCTCCTGGATCCTGTACAACCTGGCGAGGCACCCCGAATACCAGGAGCGCTGCCGGCAGGAGGTTCAAGAGCTGCTGAGGGGCCGAGAGCCCCAGGAGATTGAATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGATCCTGTACAACCTGGCG
60.46
TCCAACATGTCCAGACAGGC
59.96
153
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGAGGTTCAAGAGCTGCTGA
59.68
ACAGTTCTGCAAGCTGTCCA
59.82
141
PCR template sequence:
GGATCCTGTACAACCTGGCGAGGCACCCCGAATACCAGGAGCGCTGCCGGCAGGAGGTTCAAGAGCTGCTGAGGGGCCGAGAGCCCCAGGAGATTGAATGGCCAAGTGGCAGCGTCTGACCACCAAAGGAACTGCCTGTCTGGACATGTTGGAACACATCAGTCTGATGACCTTGGACAGCTTGCAGAACTGTGTGTTCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-16-5p(1), mmu-miR-15a-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-434-3p(1), mmu-miR-362-5p(1), mmu-miR-1198-5p(1), mmu-miR-540-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGAGATTGAATGGCCAAGTGGCAGC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCYP4F17_590_ORF_1
1.0681
0.459975562
0.945888099
591
ORF sequence:
ATGGCCAAGTGGCAGCGTCTGACCACCAAAGGAACTGCCTGTCTGGACATGTTGGAACACATCAGTCTGATGACCTTGGACAGCTTGCAGAACTGTGTGTTCAGCTTTGACAGCAACTGTCAGGAGTCTCCCAGTGAATATATTGCTGCTATTCAGGAGCTCAGCTCCCTCATAGTGAAACGGCACCACCAGCCCTTCCTGTACCTTGACTTCCTGTATTACTGCACTGCTGATGGGCGGCGCTTCCGCAAGGCCTGCGACCTGGTGCACAACTTCACAGATGCTGTCATCAGGGAGAGACGGCGCACTCTCTCCAGCCAAAATCTTGATGAGTTCCTGAAGTCGAAGACTAAGTCTAAAACCCTGGACTTCATCGATGTGCTCTTATTGGCCAAGGATGAACATGGAAAGGAGCTGTCAGATGAGGACATCCGAGCGGAGGCTGACACCTTCATGTTTGGAGGCCATGACACCACAGCCAGTGCACTCTCCTGGATCCTGTACAACCTGGCGAGGCACCCCGAATACCAGGAGCGCTGCCGGCAGGAGGTTCAAGAGCTGCTGAGGGGCCGAGAGCCCCAGGAGATTGAA
Peptide sequence:
MAKWQRLTTKGTACLDMLEHISLMTLDSLQNCVFSFDSNCQESPSEYIAAIQELSSLIVKRHHQPFLYLDFLYYCTADGRRFRKACDLVHNFTDAVIRERRRTLSSQNLDEFLKSKTKSKTLDFIDVLLLAKDEHGKELSDEDIRAEADTFMFGGHDTTASALSWILYNLARHPEYQERCRQEVQELLRGREPQEIE
IRESfinder result
IRESfinder score
0.419232313
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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