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mmu_circTyw1_424
Basic information of circular RNA
PanCircBase ID:
mmu_circTyw1_424
mm39_Chr. Position ID:
chr5|130317693|130328880|+
Gene name:
Tyw1
Transcript:
ENSMUST00000040213.13
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
11,12,13
Exon/intron offsets:
0,7771,11051
Genomic length:
11187
Exon/intron sizes in nt:
11,01,78,136
Flanking exon/introns:
chr5:130316202-130317693|chr5:130328880-130354439
Splice length:
424
Other database IDs:
circAtlas: mmu-Tyw1_0002
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_58666
Human Ortholog IDs:
Mature spliced Sequence:
GCACCATACCAATCCTGTGGGCACTGAGTGGCGGTGGAAGATGGACCAGCCAGAATTGATCTTGAAGGAAGCCATTGAGAACCATCAGAACATGATTAAACAGTTCAAAGGCGTGCCAGGCCTCAAGGCGGAGCGCTTTGAAGAGGGGATGGAGGTCAAGCACTGTGCGCTGTCACTCGTGGGTGAGCCGATCATGTACCCAGAAATCAACAGGCTTTTGAAGCTGCTCCACCAGCACGGCATCTCCAGCTTCCTTGTCACCAATGCGCAGTTCCCTGAGGAGATCAGGAAGCTCACACCAGTTACTCAGCTCTACGTGAGCGTGGACGCCAGCACCAGAGACGGCCTGAAGAAGATCGACCGCCCGCTCTTCAAGGATTTCTGGCAGCGCTTCCTAGACAGTTTGAAAGCCTTATCTGCAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAGACGGCCTGAAGAAG
60.11
CTGGCTGGTCCATCTTCCAC
60.39
142
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGAGACGGCCTGAAGAAG
60.11
TCTGGCTGGTCCATCTTCCA
60.55
143
PCR template sequence:
GGACGCCAGCACCAGAGACGGCCTGAAGAAGATCGACCGCCCGCTCTTCAAGGATTTCTGGCAGCGCTTCCTAGACAGTTTGAAAGCCTTATCTGCAAAGGCACCATACCAATCCTGTGGGCACTGAGTGGCGGTGGAAGATGGACCAGCCAGAATTGATCTTGAAGGAAGCCATTGAGAACCATCAGAACATGATTAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-362-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CTTATCTGCAAAGGCACCATACCAAT
siRNA sets
TATGGTGCCTTTGCAGATA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTYW1_424_ORF_1
1.3251
0.399601384
0.858270467
411
ORF sequence:
ATGGACCAGCCAGAATTGATCTTGAAGGAAGCCATTGAGAACCATCAGAACATGATTAAACAGTTCAAAGGCGTGCCAGGCCTCAAGGCGGAGCGCTTTGAAGAGGGGATGGAGGTCAAGCACTGTGCGCTGTCACTCGTGGGTGAGCCGATCATGTACCCAGAAATCAACAGGCTTTTGAAGCTGCTCCACCAGCACGGCATCTCCAGCTTCCTTGTCACCAATGCGCAGTTCCCTGAGGAGATCAGGAAGCTCACACCAGTTACTCAGCTCTACGTGAGCGTGGACGCCAGCACCAGAGACGGCCTGAAGAAGATCGACCGCCCGCTCTTCAAGGATTTCTGGCAGCGCTTCCTAGACAGTTTGAAAGCCTTATCTGCAAAGGCACCATACCAATCCTGTGGGCACTGA
Peptide sequence:
MDQPELILKEAIENHQNMIKQFKGVPGLKAERFEEGMEVKHCALSLVGEPIMYPEINRLLKLLHQHGISSFLVTNAQFPEEIRKLTPVTQLYVSVDASTRDGLKKIDRPLFKDFWQRFLDSLKALSAKAPYQSCGH
IRESfinder result
IRESfinder score
0.438221694
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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