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mmu_circTmem87a_671
Basic information of circular RNA
PanCircBase ID:
mmu_circTmem87a_671
mm39_Chr. Position ID:
chr2|120193359|120208473|-
Gene name:
Tmem87a
Transcript:
ENSMUST00000090042.12
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
17,16,15,14,13,12,11,10
Exon/intron offsets:
0,483,6365,7564,8645,11032,12540,15014
Genomic length:
15114
Exon/intron sizes in nt:
62,74,10,45,91,09,69,90,000
Flanking exon/introns:
chr2:120190575-120193359|chr2:120208473-120210071
Splice length:
671
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAAGCCTCGCCTTGGAGTCACTCTTCACAAGGTTGTGGTGGCAGGGGCACTTTATCTTTTATTCTCTGGCATGGAAGGAGTCCTCAGAGTTACAGGGGCCCAGACTGATCTTGCTTCCTTGGCCTTTATACCCTTGGCTTTCCTAGACACTGCCCTGTGCTGGTGGATATTCATTAGCTTAACTCAAACCATGAAGCTATTAAAACTTCGGAGGAACATTGTAAAGCTCTCTTTGTACCGACATTTCACCAATACGCTTATCTTGGCAGTGGCAGCGTCTATTGTGTTCATCATCTGGACGACCATGAAGTTCAGAATAGTGACTTGCCAGTCGGACTGGCGAGAGCTGTGGGTAGATGATGCCATTTGGAGATTGCTGTTTTCCATGATCCTCTTTGTCATCATGATTCTTTGGCGGCCATCAGCAAATAACCAGAGGTTTGCCTTCTCACCGTTGTCAGAGGAAGATGAGGAGGATGAGCAGAAGGAGCCGATGCTGAAGGAAAGCTTTGAAGGAATGAAAATGAGAAGTACCAAGCAGGAACCAAATGGGACTAGTAAAGTAAACAAAGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGCAGAAGGAGCCGATG
59.89
ATGATGACCAGGGTTCGAGC
59.82
171
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATGAGCAGAAGGAGCCGATG
59.89
AGTGAGCGCTTTACTGCTGA
59.68
150
PCR template sequence:
GGATGAGCAGAAGGAGCCGATGCTGAAGGAAAGCTTTGAAGGAATGAAAATGAGAAGTACCAAGCAGGAACCAAATGGGACTAGTAAAGTAAACAAAGCATCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAAAGCGCTCACTGGCTCGAACCCTGGTCATCATAGTCAGTCTGGGATACGGCATAGTCAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
9
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-34a-5p(1), mmu-miR-106b-5p(1), mmu-miR-326-3p(1), mmu-miR-340-5p(1), mmu-miR-224-5p(1), mmu-miR-5101(1), mmu-miR-335-3p(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
AGTAAACAAAGCATCCAGAATGCCTT
siRNA sets
TTCTGGATGCTTTGTTTAC, ATTCTGGATGCTTTGTTTA, TCTGGATGCTTTGTTTACT
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCTMEM87A_671_ORF_1
0.9987
0.127445325
0.739607892
546
ORF sequence:
ATGGAAGGAGTCCTCAGAGTTACAGGGGCCCAGACTGATCTTGCTTCCTTGGCCTTTATACCCTTGGCTTTCCTAGACACTGCCCTGTGCTGGTGGATATTCATTAGCTTAACTCAAACCATGAAGCTATTAAAACTTCGGAGGAACATTGTAAAGCTCTCTTTGTACCGACATTTCACCAATACGCTTATCTTGGCAGTGGCAGCGTCTATTGTGTTCATCATCTGGACGACCATGAAGTTCAGAATAGTGACTTGCCAGTCGGACTGGCGAGAGCTGTGGGTAGATGATGCCATTTGGAGATTGCTGTTTTCCATGATCCTCTTTGTCATCATGATTCTTTGGCGGCCATCAGCAAATAACCAGAGGTTTGCCTTCTCACCGTTGTCAGAGGAAGATGAGGAGGATGAGCAGAAGGAGCCGATGCTGAAGGAAAGCTTTGAAGGAATGAAAATGAGAAGTACCAAGCAGGAACCAAATGGGACTAGTAAAGTAAACAAAGCATCCAGAATGCCTTGGTCCTTGCAGAGCTGCTCTCAGCAGTAA
Peptide sequence:
MEGVLRVTGAQTDLASLAFIPLAFLDTALCWWIFISLTQTMKLLKLRRNIVKLSLYRHFTNTLILAVAASIVFIIWTTMKFRIVTCQSDWRELWVDDAIWRLLFSMILFVIMILWRPSANNQRFAFSPLSEEDEEDEQKEPMLKESFEGMKMRSTKQEPNGTSKVNKASRMPWSLQSCSQQ
IRESfinder result
IRESfinder score
0.655374994
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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