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mmu_circClasp1_473
Basic information of circular RNA
PanCircBase ID:
mmu_circClasp1_473
mm39_Chr. Position ID:
chr1|118470834|118475758|+
Gene name:
Clasp1
Transcript:
ENSMUST00000187713.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
25,26,27,28
Exon/intron offsets:
0,2288,4551,4760
Genomic length:
4924
Exon/intron sizes in nt:
242,64,3,164
Flanking exon/introns:
chr1:118469428-118470834|chr1:118475758-118478816
Splice length:
473
Other database IDs:
circAtlas: mmu-Clasp1_0109
Human Ortholog IDs:
Mature spliced Sequence:
AAGCCTGTGAGAAGGAGATACGAGCCCTATGGAATGTACTCTGATGATGATGCCAACAGTGATGCCTCCAGCGTGTGCTCTGAGCGCTCATATGGCTCCAGGAATGGTGGCATTCCCCATTATCTGCGGCAGACTGAAGATGTAGCAGAGGTTCTCAACCATTGTGCCAGTTCCAACTGGTCAGAACGGAAAGAGGGGCTCCTGGGCCTGCAGAACTTACTGAAGAGCCAAAGAACACTGAGTCGAGTAGAATTGAAGAGACTGTGTGAGATTTTCACCCGAATGTTTGCCGACCCTCACAGCAAGAGAGTTTTCAGTATGTTTTTGGAGACCCTCGTGGATTTTATAATCATTCATAAGGATGACTTGCAAGACTGGCTCTTCGTCCTTCTCACACAACTACTTAAGAAAATGGGAGCAGACTTACTTGGATCTGTGCAAGCAAAAGTTCAGAAGGCTCTCGATGTCACCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGCTCTTCGTCCTTCTCACA
59.4
AGGCATCACTGTTGGCATCA
59.96
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGGCTCTTCGTCCTTCTCAC
59.4
AGGCATCACTGTTGGCATCA
59.96
165
PCR template sequence:
ACTGGCTCTTCGTCCTTCTCACACAACTACTTAAGAAAATGGGAGCAGACTTACTTGGATCTGTGCAAGCAAAAGTTCAGAAGGCTCTCGATGTCACCAGAAGCCTGTGAGAAGGAGATACGAGCCCTATGGAATGTACTCTGATGATGATGCCAACAGTGATGCCTCCAGCGTGTGCTCTGAGCGCTCATATGGCTCCA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
5
Interacting miRNAs (#binding sites)
mmu-miR-221-3p(1), mmu-miR-222-3p(1), mmu-miR-434-5p(1), mmu-miR-431-5p(1), mmu-miR-342-3p(1)
siRNAs for circular RNA silencing
Junction sequence
TCGATGTCACCAGAAGCCTGTGAGAA
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCCLASP1_473_ORF_1
0.9809
0.19812246
0.649371369
450
ORF sequence:
ATGTACTCTGATGATGATGCCAACAGTGATGCCTCCAGCGTGTGCTCTGAGCGCTCATATGGCTCCAGGAATGGTGGCATTCCCCATTATCTGCGGCAGACTGAAGATGTAGCAGAGGTTCTCAACCATTGTGCCAGTTCCAACTGGTCAGAACGGAAAGAGGGGCTCCTGGGCCTGCAGAACTTACTGAAGAGCCAAAGAACACTGAGTCGAGTAGAATTGAAGAGACTGTGTGAGATTTTCACCCGAATGTTTGCCGACCCTCACAGCAAGAGAGTTTTCAGTATGTTTTTGGAGACCCTCGTGGATTTTATAATCATTCATAAGGATGACTTGCAAGACTGGCTCTTCGTCCTTCTCACACAACTACTTAAGAAAATGGGAGCAGACTTACTTGGATCTGTGCAAGCAAAAGTTCAGAAGGCTCTCGATGTCACCAGAAGCCTGTGA
Peptide sequence:
MYSDDDANSDASSVCSERSYGSRNGGIPHYLRQTEDVAEVLNHCASSNWSERKEGLLGLQNLLKSQRTLSRVELKRLCEIFTRMFADPHSKRVFSMFLETLVDFIIIHKDDLQDWLFVLLTQLLKKMGADLLGSVQAKVQKALDVTRSL
IRESfinder result
IRESfinder score
0.416432958
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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