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mmu_circTyw1_702_1
Basic information of circular RNA
PanCircBase ID:
mmu_circTyw1_702_1
mm39_Chr. Position ID:
chr5|130291659|130298288|+
Gene name:
Tyw1
Transcript:
ENSMUST00000044204.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
3,4,5,6
Exon/intron offsets:
0,4164,5076,6347
Genomic length:
6629
Exon/intron sizes in nt:
1,23,10,21,95,282
Flanking exon/introns:
chr5:130287895-130291659|chr5:130298288-130303461
Splice length:
702
Other database IDs:
circAtlas: mmu-Tyw1_0018
Human Ortholog IDs:
Mature spliced Sequence:
GTCACTCGTTCCCAGGAGAAACGTGTCCCAGGAGCTCCTGATAGCTCCCTCTCCCCTCAGAAGAAGCAGACACACGTTTCTGGAGTGAAGATTTTTTACGGATCTCAGACGGGCACTGCCAAGGGATTTGCAGTGGTTCTTGCCAAAGCTGTCACCTCTCTGGACCTGCCTGTGGCCATTATTAATCTGAAGGAATATGATCCAGATGACAGTCTGATAGGAGAGATCACTAGTAAAACCGTCTGTGCCTTCCTGGTCGCTACGTACACGGACGGCTGCCCTACAGAGAGTGCAGAGTGGTTCTGCAAGTGGTTAGAGGAATCAGCTAATGATTTCCGCTTTGGCAAAACTTACCTGAAGGGACTTCGCTATGCAGTGTTTGGCCTGGGAGACTCTGCCTACCGGAGCCACTTCAACAAGGTCAGCACGAACGTTGACAAATGGCTCTGGATGCTCGGTGCCCAGCGGGTGCTGACCCGAGGGGAAGGCGACTGCAATGCAGTTCAGAGCAAACATGGCAGCATCGAGGCCGACTTCACAGCCTGGAAGACCAAGTTCATCTCCCGGCTGCAGGCCCTGCAGAGAGGGGAGAAAAAGGCTTGTGGCGGGAACTGCAAGAGAGGGAAGTGTGAGTCGGCCCAGCATGGCCCAGGAGAGGCGCGGCCTCACCCGCAAGGCGAATTGCATCCTGGGGATGCTGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGGGAAGTGTGAGTCGG
59.47
TCCAGAAACGTGTGTCTGCT
59.54
169
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GAGAGGGAAGTGTGAGTCGG
59.47
GGGAGAGGGAGCTATCAGGA
59.51
140
PCR template sequence:
TGGCGGGAACTGCAAGAGAGGGAAGTGTGAGTCGGCCCAGCATGGCCCAGGAGAGGCGCGGCCTCACCCGCAAGGCGAATTGCATCCTGGGGATGCTGAGGTCACTCGTTCCCAGGAGAAACGTGTCCCAGGAGCTCCTGATAGCTCCCTCTCCCCTCAGAAGAAGCAGACACACGTTTCTGGAGTGAAGATTTTTTACG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
6
Interacting miRNAs (#binding sites)
mmu-miR-200a-3p(1), mmu-miR-141-3p(1), mmu-miR-33-5p(1), mmu-miR-217-5p(1), mmu-miR-324-5p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
TGGGGATGCTGAGGTCACTCGTTCCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTYW1_702_1_ORF_1
0.9655
0.370593579
0.992747404
954
ORF sequence:
ATGCTCGGTGCCCAGCGGGTGCTGACCCGAGGGGAAGGCGACTGCAATGCAGTTCAGAGCAAACATGGCAGCATCGAGGCCGACTTCACAGCCTGGAAGACCAAGTTCATCTCCCGGCTGCAGGCCCTGCAGAGAGGGGAGAAAAAGGCTTGTGGCGGGAACTGCAAGAGAGGGAAGTGTGAGTCGGCCCAGCATGGCCCAGGAGAGGCGCGGCCTCACCCGCAAGGCGAATTGCATCCTGGGGATGCTGAGGTCACTCGTTCCCAGGAGAAACGTGTCCCAGGAGCTCCTGATAGCTCCCTCTCCCCTCAGAAGAAGCAGACACACGTTTCTGGAGTGAAGATTTTTTACGGATCTCAGACGGGCACTGCCAAGGGATTTGCAGTGGTTCTTGCCAAAGCTGTCACCTCTCTGGACCTGCCTGTGGCCATTATTAATCTGAAGGAATATGATCCAGATGACAGTCTGATAGGAGAGATCACTAGTAAAACCGTCTGTGCCTTCCTGGTCGCTACGTACACGGACGGCTGCCCTACAGAGAGTGCAGAGTGGTTCTGCAAGTGGTTAGAGGAATCAGCTAATGATTTCCGCTTTGGCAAAACTTACCTGAAGGGACTTCGCTATGCAGTGTTTGGCCTGGGAGACTCTGCCTACCGGAGCCACTTCAACAAGGTCAGCACGAACGTTGACAAATGGCTCTGGATGCTCGGTGCCCAGCGGGTGCTGACCCGAGGGGAAGGCGACTGCAATGCAGTTCAGAGCAAACATGGCAGCATCGAGGCCGACTTCACAGCCTGGAAGACCAAGTTCATCTCCCGGCTGCAGGCCCTGCAGAGAGGGGAGAAAAAGGCTTGTGGCGGGAACTGCAAGAGAGGGAAGTGTGAGTCGGCCCAGCATGGCCCAGGAGAGGCGCGGCCTCACCCGCAAGGCGAATTGCATCCTGGGGATGCTGAG
Peptide sequence:
MLGAQRVLTRGEGDCNAVQSKHGSIEADFTAWKTKFISRLQALQRGEKKACGGNCKRGKCESAQHGPGEARPHPQGELHPGDAEVTRSQEKRVPGAPDSSLSPQKKQTHVSGVKIFYGSQTGTAKGFAVVLAKAVTSLDLPVAIINLKEYDPDDSLIGEITSKTVCAFLVATYTDGCPTESAEWFCKWLEESANDFRFGKTYLKGLRYAVFGLGDSAYRSHFNKVSTNVDKWLWMLGAQRVLTRGEGDCNAVQSKHGSIEADFTAWKTKFISRLQALQRGEKKACGGNCKRGKCESAQHGPGEARPHPQGELHPGDAE
IRESfinder result
IRESfinder score
0.439500382
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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