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mmu_circArhgap12_836
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgap12_836
mm39_Chr. Position ID:
chr18|6027574|6039455|-
Gene name:
Arhgap12
Transcript:
ENSMUST00000182066.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
8
Exon/intron indexes:
15,14,13,12,11,10,9,8
Exon/intron offsets:
0,385,619,4155,5566,6875,9443,11779
Genomic length:
11881
Exon/intron sizes in nt:
10,31,35,78,99,11,71,00,00,000
Flanking exon/introns:
chr18:6026730-6027574|chr18:6039455-6049276
Splice length:
836
Other database IDs:
CIRCpedia: MMU_CIRCpedia_24852, circAtlas: mmu-Arhgap12_0018
Human Ortholog IDs:
Mature spliced Sequence:
TTTGGGAGTAATCAGTCCAAACCAGAATTCACAGTGGACCTGAAGGGGGCAGTGATTGAAATGGCATCAAAGGACAAATCGAGCAAGAAGAATGTATTTGAGCTGAAAACTCGACAAGGAACAGAACTGCTAATTCAGTCTGATAATGATGCTGTTATTAATGATTGGTTTAAAGTTCTTAGTAGTACTATCAATAACCAGGTAGCAGAGGCCGATGAAGCAGCTGAAGAGGAAACACCAGATTCACCAGGGGTAGAAAAGCATGATAAAGAAAAGGACCAGAAGGAGCTTAAAAAACTTCGCTCAATGAAAGGATCCAGCATGGATTCTTCAGAGCAGAAGAAAACTAAGAAAAACTTAAAGAAGTTTCTTACCCGGCGCCCCACTTTGCAAGCTGTTCGTGAGAAAGGTTATATCAAAGATCAAGTATTTGGATCTAATCTTGCTAATCTGTGTCAGAGGGAGAATGGGACAGTGCCAAAGTTTGTGAAGTTATGCATTGAGCATGTCGAAGAGCATGGTTTAGATGTTGATGGTATTTACAGAGTGAGTGGCAACCTTGCCGTGATCCAGAAGCTGAGGTTCGCAGTCAATCATGATGAGAAGTTGGACTTGAATGACAGTAAATGGGAAGACATTCATGTCATCACGGGAGCACTCAAAATGTTTTTTCGAGAACTACCAGAACCTCTTTTTACGTTTAATCATTTCAATGATTTTGTTAATGCAATTAAACAAGAACCGAGACAGCGTGTCACTGCAGTTAAGGACCTAATCAGACAGTTGCCAAAGCCAAATCAAGATACAATGCAGATTCTGTTTAGACATCTCAAAAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCGTGTCACTGCAGTTA
59.9
GCCATTTCAATCACTGCCCC
59.82
155
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ACAGCGTGTCACTGCAGTTA
59.9
TCAATCACTGCCCCCTTCAG
59.67
149
PCR template sequence:
AAGAACCGAGACAGCGTGTCACTGCAGTTAAGGACCTAATCAGACAGTTGCCAAAGCCAAATCAAGATACAATGCAGATTCTGTTTAGACATCTCAAAAGTTTGGGAGTAATCAGTCCAAACCAGAATTCACAGTGGACCTGAAGGGGGCAGTGATTGAAATGGCATCAAAGGACAAATCGAGCAAGAAGAATGTATTTG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
8
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(1), mmu-miR-203-3p(1), mmu-miR-433-3p(1), mmu-miR-96-5p(1), mmu-miR-324-3p(1), mmu-miR-3065-5p(1), mmu-miR-3470b(1), mmu-miR-1904(1)
siRNAs for circular RNA silencing
Junction sequence
GACATCTCAAAAGTTTGGGAGTAATC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGAP12_836_ORF_1
1.1648
0.124561172
0.964544902
819
ORF sequence:
ATGGCATCAAAGGACAAATCGAGCAAGAAGAATGTATTTGAGCTGAAAACTCGACAAGGAACAGAACTGCTAATTCAGTCTGATAATGATGCTGTTATTAATGATTGGTTTAAAGTTCTTAGTAGTACTATCAATAACCAGGTAGCAGAGGCCGATGAAGCAGCTGAAGAGGAAACACCAGATTCACCAGGGGTAGAAAAGCATGATAAAGAAAAGGACCAGAAGGAGCTTAAAAAACTTCGCTCAATGAAAGGATCCAGCATGGATTCTTCAGAGCAGAAGAAAACTAAGAAAAACTTAAAGAAGTTTCTTACCCGGCGCCCCACTTTGCAAGCTGTTCGTGAGAAAGGTTATATCAAAGATCAAGTATTTGGATCTAATCTTGCTAATCTGTGTCAGAGGGAGAATGGGACAGTGCCAAAGTTTGTGAAGTTATGCATTGAGCATGTCGAAGAGCATGGTTTAGATGTTGATGGTATTTACAGAGTGAGTGGCAACCTTGCCGTGATCCAGAAGCTGAGGTTCGCAGTCAATCATGATGAGAAGTTGGACTTGAATGACAGTAAATGGGAAGACATTCATGTCATCACGGGAGCACTCAAAATGTTTTTTCGAGAACTACCAGAACCTCTTTTTACGTTTAATCATTTCAATGATTTTGTTAATGCAATTAAACAAGAACCGAGACAGCGTGTCACTGCAGTTAAGGACCTAATCAGACAGTTGCCAAAGCCAAATCAAGATACAATGCAGATTCTGTTTAGACATCTCAAAAGTTTGGGAGTAATCAGTCCAAACCAGAATTCACAGTGGACCTGA
Peptide sequence:
MASKDKSSKKNVFELKTRQGTELLIQSDNDAVINDWFKVLSSTINNQVAEADEAAEEETPDSPGVEKHDKEKDQKELKKLRSMKGSSMDSSEQKKTKKNLKKFLTRRPTLQAVREKGYIKDQVFGSNLANLCQRENGTVPKFVKLCIEHVEEHGLDVDGIYRVSGNLAVIQKLRFAVNHDEKLDLNDSKWEDIHVITGALKMFFRELPEPLFTFNHFNDFVNAIKQEPRQRVTAVKDLIRQLPKPNQDTMQILFRHLKSLGVISPNQNSQWT
IRESfinder result
IRESfinder score
0.66521744
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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