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mmu_circCfap69_328
Basic information of circular RNA
PanCircBase ID:
mmu_circCfap69_328
mm39_Chr. Position ID:
chr5|5675749|5676158|-
Gene name:
Cfap69
Transcript:
ENSMUST00000054865.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
8,7
Exon/intron offsets:
0,259
Genomic length:
409
Exon/intron sizes in nt:
1,78,150
Flanking exon/introns:
chr5:5672043-5675749|chr5:5676158-5690128
Splice length:
328
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTACCAGCAGGTGAGTTCATCCTACAAGATTAAAATGGTAGAGGTCGGTGGCTTGGCGAAGGCAATGGTCCAGTCGGCACTCCTGCTTGAGAATCAGCTTGTCGAGAAACTCTGGGTTCTGAAAGTCCTGCAGCATCTCTCTACTTCTGGAGTTAATTGCACTTTAATGGTGAAAGCCCAAGCAGCCAGCGGAATCTGTGCTCACCTCAATGACCCAGATCCCTCAGGACAGCTTTTATTTCGTTCATCAGAAGTACTTTGGAATTTACTGGAAAAATCTTCAAAGGAGGAAATTATACAACAGCTTAGTAACTTGGAATGCCTGCT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTTCATCAGAAGTACTTTGGA
57.54
GCCACCGACCTCTACCATTT
59.75
140
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TCGTTCATCAGAAGTACTTTGGA
57.54
AGCCACCGACCTCTACCATT
60.62
141
PCR template sequence:
GACAGCTTTTATTTCGTTCATCAGAAGTACTTTGGAATTTACTGGAAAAATCTTCAAAGGAGGAAATTATACAACAGCTTAGTAACTTGGAATGCCTGCTGCTACCAGCAGGTGAGTTCATCCTACAAGATTAAAATGGTAGAGGTCGGTGGCTTGGCGAAGGCAATGGTCCAGTCGGCACTCCTGCTTGAGAATCAGCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
10
Interacting miRNAs (#binding sites)
mmu-miR-20b-5p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-320-3p(1), mmu-miR-301b-3p(1), mmu-miR-721(1), mmu-miR-382-5p(1), mmu-miR-301a-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TGGAATGCCTGCTGCTACCAGCAGGT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCFAP69_328_ORF_1
0.7626
0.047444421
0.391199374
444
ORF sequence:
ATGACCCAGATCCCTCAGGACAGCTTTTATTTCGTTCATCAGAAGTACTTTGGAATTTACTGGAAAAATCTTCAAAGGAGGAAATTATACAACAGCTTAGTAACTTGGAATGCCTGCTGCTACCAGCAGGTGAGTTCATCCTACAAGATTAAAATGGTAGAGGTCGGTGGCTTGGCGAAGGCAATGGTCCAGTCGGCACTCCTGCTTGAGAATCAGCTTGTCGAGAAACTCTGGGTTCTGAAAGTCCTGCAGCATCTCTCTACTTCTGGAGTTAATTGCACTTTAATGGTGAAAGCCCAAGCAGCCAGCGGAATCTGTGCTCACCTCAATGACCCAGATCCCTCAGGACAGCTTTTATTTCGTTCATCAGAAGTACTTTGGAATTTACTGGAAAAATCTTCAAAGGAGGAAATTATACAACAGCTTAGTAACTTGGAATGCCTG
Peptide sequence:
MTQIPQDSFYFVHQKYFGIYWKNLQRRKLYNSLVTWNACCYQQVSSSYKIKMVEVGGLAKAMVQSALLLENQLVEKLWVLKVLQHLSTSGVNCTLMVKAQAASGICAHLNDPDPSGQLLFRSSEVLWNLLEKSSKEEIIQQLSNLECL
IRESfinder result
IRESfinder score
0.728844429
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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