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mmu_circTpx2_310
Basic information of circular RNA
PanCircBase ID:
mmu_circTpx2_310
mm39_Chr. Position ID:
chr2|152726930|152730115|+
Gene name:
Tpx2
Transcript:
ENSMUST00000164120.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
2
Exon/intron indexes:
12,13
Exon/intron offsets:
0,3092
Genomic length:
3185
Exon/intron sizes in nt:
217,93
Flanking exon/introns:
chr2:152726232-152726930|chr2:152730115-152731065
Splice length:
310
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATACAAATTCAAAGCACGGGAACTTGATCCTAGAATTTTTGAAAGTGGCCCCATCTTGCCCAAGAGAGCACCTGTTAAACCTCCTACTCAGCCTGTTGGTTTTGATTTGGAAATTGAGAAACGAATTCATGAGCGAGAGTCAAAGAAAAAAACAGAAGATGAACAATTTGAATTTCATTCTAGACCTTGTCCTACTAAGATCTTGGAAGATGTCGTGGGTGTTCCTGAAAAGAAGGTAATTCCAGCTACTGTCCCGAAGTCGCCAGTTTTTGCATTGAAGAACAGGATCCGAGTGCCCATCAAAGATGAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCAGCTACTGTCCCGAAGTC
59.83
GGTGCTCTCTTGGGCAAGAT
60.03
141
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CAGCTACTGTCCCGAAGTCG
60.18
GGTGCTCTCTTGGGCAAGAT
60.03
140
PCR template sequence:
TGTCGTGGGTGTTCCTGAAAAGAAGGTAATTCCAGCTACTGTCCCGAAGTCGCCAGTTTTTGCATTGAAGAACAGGATCCGAGTGCCCATCAAAGATGAGATACAAATTCAAAGCACGGGAACTTGATCCTAGAATTTTTGAAAGTGGCCCCATCTTGCCCAAGAGAGCACCTGTTAAACCTCCTACTCAGCCTGTTGGT
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-31-5p(1)
siRNAs for circular RNA silencing
Junction sequence
CATCAAAGATGAGATACAAATTCAAA
siRNA sets
TTTGAATTTGTATCTCATC, ATTTGTATCTCATCTTTGA, TTGAATTTGTATCTCATCT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTPX2_310_ORF_1
1.0223
0.169373436
0.403510694
315
ORF sequence:
ATGAGATACAAATTCAAAGCACGGGAACTTGATCCTAGAATTTTTGAAAGTGGCCCCATCTTGCCCAAGAGAGCACCTGTTAAACCTCCTACTCAGCCTGTTGGTTTTGATTTGGAAATTGAGAAACGAATTCATGAGCGAGAGTCAAAGAAAAAAACAGAAGATGAACAATTTGAATTTCATTCTAGACCTTGTCCTACTAAGATCTTGGAAGATGTCGTGGGTGTTCCTGAAAAGAAGGTAATTCCAGCTACTGTCCCGAAGTCGCCAGTTTTTGCATTGAAGAACAGGATCCGAGTGCCCATCAAAGATGAG
Peptide sequence:
MRYKFKARELDPRIFESGPILPKRAPVKPPTQPVGFDLEIEKRIHERESKKKTEDEQFEFHSRPCPTKILEDVVGVPEKKVIPATVPKSPVFALKNRIRVPIKDE
IRESfinder result
IRESfinder score
0.738882995
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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