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mmu_circTmem87a_677
Basic information of circular RNA
PanCircBase ID:
mmu_circTmem87a_677
mm39_Chr. Position ID:
chr2|120208373|120224956|-
Gene name:
Tmem87a
Transcript:
ENSMUST00000090042.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
10,9,8,7,6,5,4
Exon/intron offsets:
0,1698,2874,7881,14288,14422,16469
Genomic length:
16583
Exon/intron sizes in nt:
1,00,18,46,21,18,45,54,000
Flanking exon/introns:
chr2:120205993-120208373|chr2:120224956-120227842
Splice length:
677
Other database IDs:
circAtlas: mmu-Tmem87a_0014
Human Ortholog IDs:
Mature spliced Sequence:
GCAGATGAAATAGAGTCATACTTGGAAAATCTCAAGGGAAAAAAAGGCTTGTCTGGGAGATACCAAACATCATCAAGATTATTTCAGAACTGTAGTGAACTCTATAAAGCACAGAGCTTTTCTGGGGATTTTACACATCGACTTCCTCTTTTGGGAGAAAAACAGGAGGCTAAGGAGAATGCAACAAATGTTACCTTTACTGGAGACAAAATTGCAATGCATGAACCATTGCAGACTTGGCAAGATGCTCCATACATTTTTATCGTGCATGTTGGCATCTCGTCCTCAAAGGAATCACCAAAAGAAAATGCACTAAGTAACCTTTTTACCATGACTGTTGAAGTAAAGGGTCCCTATGAATACCTTACTCTTGAAGACTACCCACTGATGATTTTTTTCATGGTGATGTGTATTGTGTACGTACTATTTGGTGTTCTCTGGCTGGCATGGTCTGCTTGCTACTGGAGAGATCTCCTGAGAATTCAATTTTGGATTGGTGCTGTCATCTTTCTTGGAATGTTTGAGAAAGCTGTGTTTTATGCAGAATTTCAGAATATCCGATACAAAGGAGAATCTGTCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AATGCCTTGGTCCTTGCAGA
59.89
TGGTATCTCCCAGACAAGCC
58.8
160
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGAATGCCTTGGTCCTTGCA
59.89
TGGTATCTCCCAGACAAGCC
58.8
162
PCR template sequence:
TCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAAGCAGATGAAATAGAGTCATACTTGGAAAATCTCAAGGGAAAAAAAGGCTTGTCTGGGAGATACCAAACATCATCAAGATTATTTCAGAACTGTAGTGAAC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
4
Interacting miRNAs (#binding sites)
mmu-miR-29b-3p(1), mmu-miR-29a-3p(1), mmu-miR-29c-3p(1), mmu-miR-33-5p(1)
siRNAs for circular RNA silencing
Junction sequence
ACGGCATAGTCAAGCAGATGAAATAG
siRNA sets
TTTCATCTGCTTGACTATG, TTCATCTGCTTGACTATGC, ATCTGCTTGACTATGCCGT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTMEM87A_677_ORF_1
0.8307
0.080630869
0.505059532
474
ORF sequence:
ATGCATGAACCATTGCAGACTTGGCAAGATGCTCCATACATTTTTATCGTGCATGTTGGCATCTCGTCCTCAAAGGAATCACCAAAAGAAAATGCACTAAGTAACCTTTTTACCATGACTGTTGAAGTAAAGGGTCCCTATGAATACCTTACTCTTGAAGACTACCCACTGATGATTTTTTTCATGGTGATGTGTATTGTGTACGTACTATTTGGTGTTCTCTGGCTGGCATGGTCTGCTTGCTACTGGAGAGATCTCCTGAGAATTCAATTTTGGATTGGTGCTGTCATCTTTCTTGGAATGTTTGAGAAAGCTGTGTTTTATGCAGAATTTCAGAATATCCGATACAAAGGAGAATCTGTCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAAGCAGATGAAATAG
Peptide sequence:
MHEPLQTWQDAPYIFIVHVGISSSKESPKENALSNLFTMTVEVKGPYEYLTLEDYPLMIFFMVMCIVYVLFGVLWLAWSACYWRDLLRIQFWIGAVIFLGMFEKAVFYAEFQNIRYKGESVQNALVLAELLSAVKRSLARTLVIIVSLGYGIVKQMK
IRESfinder result
IRESfinder score
0.726297077
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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