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mmu_circPlekhh2_1473
Basic information of circular RNA
PanCircBase ID:
mmu_circPlekhh2_1473
mm39_Chr. Position ID:
chr17|84877303|84899144|+
Gene name:
Plekhh2
Transcript:
ENSMUST00000047206.7
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
12
Exon/intron indexes:
9,10,11,12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,1166,1792,5055,5291,5841,7282,13589,16421,19509,20884,21661
Genomic length:
21841
Exon/intron sizes in nt:
7,69,51,45,13,71,11,87,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr17:84874363-84877303|chr17:84899144-84903635
Splice length:
1473
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
GAGAGCAGGATATATGCTGTAGCCAAATCAGGCATCCGGGTGTCTGAGGCCTTCAATATGGAGCATGCTAATAAAAATTCTGCAGACATACTTTCCTACTCTGCAGCAAGCCTTTATACGTCTCTCATATACAAGAACATGACGACCCCAGTCTATACAACGTTGAAGGGGAAGGCGACACAAATAAGTAGCAGCCCTTTCCTGGATGACTCCTCGGGCTCAGACGAAGAGGACAGTTCTAGGTCCAGCTCCCGGCTGTCGGAGTCAGATGCGCGCAGTCGCAGTGGGCCAAGCAGTCCCAGAGCCATGAAGCGAGGCGTGTCTGACTCCTCCGCAGCTTCTGAAAGTGACTATGCCATTCCTCCGGATGCCTATCCCATAGACGCAGAGTGTTCGCAGCCCGAGCAGAAACTTCTAAAAACCTGCCTGGCCTCCTGTGACAATGGGAAAAATGAACCATTAGAAAAATCTGGGTACCTACTGAAAATGAGCGTGAGAGTCAAGACTTGGAAGCGGAGGTGGTTTGTTCTGAAAGGAGGCGAATTACTTTACTACAAGTCACCAAGCGATGTGATTCGGAAACCCCAGGGCCACATTGAACTGAGTGCATCCTGCAGTATTTTACGGGGCGATAACAAGCAAACGGTTCAGCTGGCCACAGAGAAGCACACATACTATCTGACGGCGGATTCTCCCAATATACTGGAAGAATGGATCAAAGTGTTACAGAGCGTTCTGCGAGTACAAGCTGCGAACCCTCTTTGCCTGCAGCCTGAGGGCAAACCCGCAGTAAAGGGCTTGCTCACCAAGGTGAAGCATGGCTACTCTAAGAGGGTCTGGTGCATGCTTGTTGGAAAGGTCTTGTATTATTTCCGCAATCAAGAGGATAAGTTCCCTCTAGGTCAGCTCAAACTCTGGGAGGCTAAGGTGGAAGAGGTGGACAGGTCCTGTGACTCCGACGAGGACTATGAGACCCGGGGGTGCTATCTGCTGTCCACTCACTACACCATCATTGTCCACCCCAAAGACCAGGGCCCTACTTACCTGCTCATCGGATCTAAGCACGAGAAGGAAGCTTGGCTGTATCACCTCACTGTTGCAGCTGGAAGCAACAATATAAATGTTGGATCCGAATTTGAACAACTGGTTTGCAAGTTGCTGAATATAGAAGGGGAGCCCTCCTCCCAGATATGGAGACACCCCATGCTGTGTCACAGCAAAGAAGGAATTCTGTCCCCTCTGACCACACTGCCTTCGGAAGCTCTGCAGACCGAGGCCATTAAGCTATTTAAGACCTGCCAGCTCTTTATAAACGCTGCGGTCGACTCCCCTGCCATCGACTACCACATCTCTCTAGCCCAGAGCGCTCTGCAGGTCTGCCTGACGCATCCCGAGCTACAGAATGAAATCTGCTGCCAGCTTATTAAGCAGACAAGACGGAGACAGCTGCAGAACCAGCCAGGCCCGCTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CGCATCCCGAGCTACAGAAT
59.97
ATTGAAGGCCTCAGACACCC
59.67
146
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CGCATCCCGAGCTACAGAAT
59.97
GCATGCTCCATATTGAAGGCC
59.73
157
PCR template sequence:
GGTCTGCCTGACGCATCCCGAGCTACAGAATGAAATCTGCTGCCAGCTTATTAAGCAGACAAGACGGAGACAGCTGCAGAACCAGCCAGGCCCGCTGCAGGAGAGCAGGATATATGCTGTAGCCAAATCAGGCATCCGGGTGTCTGAGGCCTTCAATATGGAGCATGCTAATAAAAATTCTGCAGACATACTTTCCTACT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
13
Interacting miRNAs (#binding sites)
mmu-miR-429-3p(1), mmu-miR-200b-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-200c-3p(1), mmu-miR-326-3p(1), mmu-miR-23a-3p(1), mmu-miR-495-3p(1), mmu-miR-34b-5p(1), mmu-miR-1187(1), mmu-miR-369-3p(1), mmu-miR-540-3p(1), mmu-miR-3105-3p(1)
siRNAs for circular RNA silencing
Junction sequence
AGGCCCGCTGCAGGAGAGCAGGATAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPLEKHH2_1473_ORF_1
0.8479
0.259251732
0.999999987
2889
ORF sequence:
ATGGAGCATGCTAATAAAAATTCTGCAGACATACTTTCCTACTCTGCAGCAAGCCTTTATACGTCTCTCATATACAAGAACATGACGACCCCAGTCTATACAACGTTGAAGGGGAAGGCGACACAAATAAGTAGCAGCCCTTTCCTGGATGACTCCTCGGGCTCAGACGAAGAGGACAGTTCTAGGTCCAGCTCCCGGCTGTCGGAGTCAGATGCGCGCAGTCGCAGTGGGCCAAGCAGTCCCAGAGCCATGAAGCGAGGCGTGTCTGACTCCTCCGCAGCTTCTGAAAGTGACTATGCCATTCCTCCGGATGCCTATCCCATAGACGCAGAGTGTTCGCAGCCCGAGCAGAAACTTCTAAAAACCTGCCTGGCCTCCTGTGACAATGGGAAAAATGAACCATTAGAAAAATCTGGGTACCTACTGAAAATGAGCGTGAGAGTCAAGACTTGGAAGCGGAGGTGGTTTGTTCTGAAAGGAGGCGAATTACTTTACTACAAGTCACCAAGCGATGTGATTCGGAAACCCCAGGGCCACATTGAACTGAGTGCATCCTGCAGTATTTTACGGGGCGATAACAAGCAAACGGTTCAGCTGGCCACAGAGAAGCACACATACTATCTGACGGCGGATTCTCCCAATATACTGGAAGAATGGATCAAAGTGTTACAGAGCGTTCTGCGAGTACAAGCTGCGAACCCTCTTTGCCTGCAGCCTGAGGGCAAACCCGCAGTAAAGGGCTTGCTCACCAAGGTGAAGCATGGCTACTCTAAGAGGGTCTGGTGCATGCTTGTTGGAAAGGTCTTGTATTATTTCCGCAATCAAGAGGATAAGTTCCCTCTAGGTCAGCTCAAACTCTGGGAGGCTAAGGTGGAAGAGGTGGACAGGTCCTGTGACTCCGACGAGGACTATGAGACCCGGGGGTGCTATCTGCTGTCCACTCACTACACCATCATTGTCCACCCCAAAGACCAGGGCCCTACTTACCTGCTCATCGGATCTAAGCACGAGAAGGAAGCTTGGCTGTATCACCTCACTGTTGCAGCTGGAAGCAACAATATAAATGTTGGATCCGAATTTGAACAACTGGTTTGCAAGTTGCTGAATATAGAAGGGGAGCCCTCCTCCCAGATATGGAGACACCCCATGCTGTGTCACAGCAAAGAAGGAATTCTGTCCCCTCTGACCACACTGCCTTCGGAAGCTCTGCAGACCGAGGCCATTAAGCTATTTAAGACCTGCCAGCTCTTTATAAACGCTGCGGTCGACTCCCCTGCCATCGACTACCACATCTCTCTAGCCCAGAGCGCTCTGCAGGTCTGCCTGACGCATCCCGAGCTACAGAATGAAATCTGCTGCCAGCTTATTAAGCAGACAAGACGGAGACAGCTGCAGAACCAGCCAGGCCCGCTGCAGGAGAGCAGGATATATGCTGTAGCCAAATCAGGCATCCGGGTGTCTGAGGCCTTCAATATGGAGCATGCTAATAAAAATTCTGCAGACATACTTTCCTACTCTGCAGCAAGCCTTTATACGTCTCTCATATACAAGAACATGACGACCCCAGTCTATACAACGTTGAAGGGGAAGGCGACACAAATAAGTAGCAGCCCTTTCCTGGATGACTCCTCGGGCTCAGACGAAGAGGACAGTTCTAGGTCCAGCTCCCGGCTGTCGGAGTCAGATGCGCGCAGTCGCAGTGGGCCAAGCAGTCCCAGAGCCATGAAGCGAGGCGTGTCTGACTCCTCCGCAGCTTCTGAAAGTGACTATGCCATTCCTCCGGATGCCTATCCCATAGACGCAGAGTGTTCGCAGCCCGAGCAGAAACTTCTAAAAACCTGCCTGGCCTCCTGTGACAATGGGAAAAATGAACCATTAGAAAAATCTGGGTACCTACTGAAAATGAGCGTGAGAGTCAAGACTTGGAAGCGGAGGTGGTTTGTTCTGAAAGGAGGCGAATTACTTTACTACAAGTCACCAAGCGATGTGATTCGGAAACCCCAGGGCCACATTGAACTGAGTGCATCCTGCAGTATTTTACGGGGCGATAACAAGCAAACGGTTCAGCTGGCCACAGAGAAGCACACATACTATCTGACGGCGGATTCTCCCAATATACTGGAAGAATGGATCAAAGTGTTACAGAGCGTTCTGCGAGTACAAGCTGCGAACCCTCTTTGCCTGCAGCCTGAGGGCAAACCCGCAGTAAAGGGCTTGCTCACCAAGGTGAAGCATGGCTACTCTAAGAGGGTCTGGTGCATGCTTGTTGGAAAGGTCTTGTATTATTTCCGCAATCAAGAGGATAAGTTCCCTCTAGGTCAGCTCAAACTCTGGGAGGCTAAGGTGGAAGAGGTGGACAGGTCCTGTGACTCCGACGAGGACTATGAGACCCGGGGGTGCTATCTGCTGTCCACTCACTACACCATCATTGTCCACCCCAAAGACCAGGGCCCTACTTACCTGCTCATCGGATCTAAGCACGAGAAGGAAGCTTGGCTGTATCACCTCACTGTTGCAGCTGGAAGCAACAATATAAATGTTGGATCCGAATTTGAACAACTGGTTTGCAAGTTGCTGAATATAGAAGGGGAGCCCTCCTCCCAGATATGGAGACACCCCATGCTGTGTCACAGCAAAGAAGGAATTCTGTCCCCTCTGACCACACTGCCTTCGGAAGCTCTGCAGACCGAGGCCATTAAGCTATTTAAGACCTGCCAGCTCTTTATAAACGCTGCGGTCGACTCCCCTGCCATCGACTACCACATCTCTCTAGCCCAGAGCGCTCTGCAGGTCTGCCTGACGCATCCCGAGCTACAGAATGAAATCTGCTGCCAGCTTATTAAGCAGACAAGACGGAGACAGCTGCAGAACCAGCCAGGCCCGCTGCAG
Peptide sequence:
MEHANKNSADILSYSAASLYTSLIYKNMTTPVYTTLKGKATQISSSPFLDDSSGSDEEDSSRSSSRLSESDARSRSGPSSPRAMKRGVSDSSAASESDYAIPPDAYPIDAECSQPEQKLLKTCLASCDNGKNEPLEKSGYLLKMSVRVKTWKRRWFVLKGGELLYYKSPSDVIRKPQGHIELSASCSILRGDNKQTVQLATEKHTYYLTADSPNILEEWIKVLQSVLRVQAANPLCLQPEGKPAVKGLLTKVKHGYSKRVWCMLVGKVLYYFRNQEDKFPLGQLKLWEAKVEEVDRSCDSDEDYETRGCYLLSTHYTIIVHPKDQGPTYLLIGSKHEKEAWLYHLTVAAGSNNINVGSEFEQLVCKLLNIEGEPSSQIWRHPMLCHSKEGILSPLTTLPSEALQTEAIKLFKTCQLFINAAVDSPAIDYHISLAQSALQVCLTHPELQNEICCQLIKQTRRRQLQNQPGPLQESRIYAVAKSGIRVSEAFNMEHANKNSADILSYSAASLYTSLIYKNMTTPVYTTLKGKATQISSSPFLDDSSGSDEEDSSRSSSRLSESDARSRSGPSSPRAMKRGVSDSSAASESDYAIPPDAYPIDAECSQPEQKLLKTCLASCDNGKNEPLEKSGYLLKMSVRVKTWKRRWFVLKGGELLYYKSPSDVIRKPQGHIELSASCSILRGDNKQTVQLATEKHTYYLTADSPNILEEWIKVLQSVLRVQAANPLCLQPEGKPAVKGLLTKVKHGYSKRVWCMLVGKVLYYFRNQEDKFPLGQLKLWEAKVEEVDRSCDSDEDYETRGCYLLSTHYTIIVHPKDQGPTYLLIGSKHEKEAWLYHLTVAAGSNNINVGSEFEQLVCKLLNIEGEPSSQIWRHPMLCHSKEGILSPLTTLPSEALQTEAIKLFKTCQLFINAAVDSPAIDYHISLAQSALQVCLTHPELQNEICCQLIKQTRRRQLQNQPGPLQ
IRESfinder result
IRESfinder score
0.4147181
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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