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mmu_circTpx2_626
Basic information of circular RNA
PanCircBase ID:
mmu_circTpx2_626
mm39_Chr. Position ID:
chr2|152726093|152731242|+
Gene name:
Tpx2
Transcript:
ENSMUST00000164120.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
11,12,13,14
Exon/intron offsets:
0,837,3929,4972
Genomic length:
5149
Exon/intron sizes in nt:
13,92,17,93,177
Flanking exon/introns:
chr2:152724282-152726093|chr2:152731242-152732410
Splice length:
626
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GCTTGTTACCCTCCAAATCTGTGAACAAGATTGCACGAGACCCCCAGACCCCCATACTGCAGACCAAATATCGTACAAGGGCTGTGACTTGCAAAAGTACTGCAGAGCAGGAGGCCGAGGAGCTTGAGAAACTGCAACAATACAAATTCAAAGCACGGGAACTTGATCCTAGAATTTTTGAAAGTGGCCCCATCTTGCCCAAGAGAGCACCTGTTAAACCTCCTACTCAGCCTGTTGGTTTTGATTTGGAAATTGAGAAACGAATTCATGAGCGAGAGTCAAAGAAAAAAACAGAAGATGAACAATTTGAATTTCATTCTAGACCTTGTCCTACTAAGATCTTGGAAGATGTCGTGGGTGTTCCTGAAAAGAAGGTAATTCCAGCTACTGTCCCGAAGTCGCCAGTTTTTGCATTGAAGAACAGGATCCGAGTGCCCATCAAAGATGAGGAAGAGGAGAAACCAGTAGTGATAAAAGCTCAACCTGTGCCACATTATGGGGTGCCTTATAAGCCCCACATCGCAGAGGCAAGAAATGTGGAGGTGTGCCCGTTCTCCTTTGATACCCGGGACAAAGAACGCCAGTTGCAGAAGGAGAAAAAAATAAAAGAGATGCAGAAAGGGGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAATGTGGAGGTGTGCCC
60.25
GTCTGCAGTATGGGGGTCTG
59.82
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAAATGTGGAGGTGTGCCC
60.25
GGGGTCTCGTGCAATCTTGT
60.32
140
PCR template sequence:
GGCAAGAAATGTGGAGGTGTGCCCGTTCTCCTTTGATACCCGGGACAAAGAACGCCAGTTGCAGAAGGAGAAAAAAATAAAAGAGATGCAGAAAGGGGAGGCTTGTTACCCTCCAAATCTGTGAACAAGATTGCACGAGACCCCCAGACCCCCATACTGCAGACCAAATATCGTACAAGGGCTGTGACTTGCAAAAGTAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
3
Interacting miRNAs (#binding sites)
mmu-miR-124-3p(1), mmu-miR-31-5p(1), mmu-miR-673-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCAGAAAGGGGAGGCTTGTTACCCTC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.603852438
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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