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mmu_circU2surp_291
Basic information of circular RNA
PanCircBase ID:
mmu_circU2surp_291
mm39_Chr. Position ID:
chr9|95359452|95363785|-
Gene name:
U2surp
Transcript:
ENSMUST00000079659.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
20,19,18
Exon/intron offsets:
0,1867,4253
Genomic length:
4333
Exon/intron sizes in nt:
123,88,80
Flanking exon/introns:
chr9:95358316-95359452|chr9:95363785-95364144
Splice length:
291
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTGCCAGATTATATTTGGTTTCTGATGTTTTATACAACTCTTCAGCCAAAGTTGCCAATGCTTCATATTACAGGAAATTTTTTGAAACAAAGCTATGCCAGATATTTTCAGACCTCAATGCTACTTATCGTACAATTCAAGGCCATTTACAATCTGAAAACTTTAAGCAACGGGTAATGACCTGCTTCAGAGCATGGGAAGATTGGGCAATTTATCCAGAACCATTTTTGATCAAACTTCAGAATATTTTCTTAGGACTTGTAAATATCATTGAAGAAAAGGAAACAGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATGGGAAGATTGGGCAA
59.96
GCAACTTTGGCTGAAGAGTTGT
59.9
156
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGCATGGGAAGATTGGGCAA
59.96
TGAAGCATTGGCAACTTTGG
57.47
166
PCR template sequence:
AGCATGGGAAGATTGGGCAATTTATCCAGAACCATTTTTGATCAAACTTCAGAATATTTTCTTAGGACTTGTAAATATCATTGAAGAAAAGGAAACAGAGATTGCCAGATTATATTTGGTTTCTGATGTTTTATACAACTCTTCAGCCAAAGTTGCCAATGCTTCATATTACAGGAAATTTTTTGAAACAAAGCTATGCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
2
Interacting miRNAs (#binding sites)
mmu-miR-182-5p(1), mmu-miR-340-5p(1)
siRNAs for circular RNA silencing
Junction sequence
AAAGGAAACAGAGATTGCCAGATTAT
siRNA sets
ATAATCTGGCAATCTCTGT, TCTGGCAATCTCTGTTTCC, CTGGCAATCTCTGTTTCCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCU2SURP_291_ORF_1
0.6252
-0.096943769
0.172524352
405
ORF sequence:
ATGACCTGCTTCAGAGCATGGGAAGATTGGGCAATTTATCCAGAACCATTTTTGATCAAACTTCAGAATATTTTCTTAGGACTTGTAAATATCATTGAAGAAAAGGAAACAGAGATTGCCAGATTATATTTGGTTTCTGATGTTTTATACAACTCTTCAGCCAAAGTTGCCAATGCTTCATATTACAGGAAATTTTTTGAAACAAAGCTATGCCAGATATTTTCAGACCTCAATGCTACTTATCGTACAATTCAAGGCCATTTACAATCTGAAAACTTTAAGCAACGGGTAATGACCTGCTTCAGAGCATGGGAAGATTGGGCAATTTATCCAGAACCATTTTTGATCAAACTTCAGAATATTTTCTTAGGACTTGTAAATATCATTGAAGAAAAGGAAACAGAG
Peptide sequence:
MTCFRAWEDWAIYPEPFLIKLQNIFLGLVNIIEEKETEIARLYLVSDVLYNSSAKVANASYYRKFFETKLCQIFSDLNATYRTIQGHLQSENFKQRVMTCFRAWEDWAIYPEPFLIKLQNIFLGLVNIIEEKETE
IRESfinder result
IRESfinder score
0.830713938
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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