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mmu_circArhgef12_896_1
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef12_896_1
mm39_Chr. Position ID:
chr9|42897757|42909082|-
Gene name:
Arhgef12
Transcript:
ENSMUST00000165665.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
7
Exon/intron indexes:
28,27,26,25,24,23,22
Exon/intron offsets:
0,2498,3513,5412,6074,6527,11112
Genomic length:
11325
Exon/intron sizes in nt:
12,68,61,47,15,53,61,30,000
Flanking exon/introns:
chr9:42895784-42897757|chr9:42909082-42910361
Splice length:
896
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
TTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCAGAGTGGAGTAGCCAATGAAGGAACAGACACTGGATACCTGCCCGCCAGTTCCATGTCCTCTGCCACCTCAGGGACTGCTCTTTCCCAAGAGGGAGGGAGAGAGAATGATACAGGAACAAAACAAGTGGGAGAAGCATCGGCGCCTGGAGACTGCTTGGACAGCACACCTCGAGTCCCCACTACTGTTTTCGACTTCCCTCCTCCTCTATTAGATCAAGTGCAGGAGGAGGAGTGTGAAGTAGAGAGGGTGGCAGAACATGGGACCCCAAAACCCTTTCGGAAGTTTGACAGCATCGCCTTTGGAGAAAGTCAGAGTGAGGATGAGCAGTTTGAAAATGACCTGGAGACAGATCCACCCAACTGGCAGCAGCTTGTTAGCAGAGAAGTGTTACTGGGACTGAAACCTTCTGAGATCAAAAGACAGGAAGTGATTAATGAATTGTTCTACACTGAGAGAGCTCATGTCCGGACACTGAAGGTTCTTGACCAAGTATTCTATCAGCGAGTGTCCAGAGAAGGGATTCTATCACCTTCAGAACTACGCAAGATTTTTTCAAACTTGGAAGATATCCTTCAACTTCATGTTGGGTTGAATGAGCAAATGAAAGCTGTCCGAAAAAGGAATGAAACTTCTGTTATTGATCATATTGGGGAAGATCTGCTCATCTGGTTTAGTGGACCAGGAGAGGAGAAGCTGAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CATGCTGCTGCCACATTCTG
60.18
TCACAGACGAGGGAGTGGAT
59.96
162
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GCAGTAACCAACCTTTCGCC
59.76
TCACAGACGAGGGAGTGGAT
59.96
143
PCR template sequence:
GAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAATTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCA
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-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-24-3p(1), mmu-miR-107-3p(1), mmu-miR-802-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
TACTTTTGTGCAATTGGCAGGGCCAT
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF12_896_1_ORF_1
0.9106
0.198487802
0.983416863
951
ORF sequence:
ATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCAGAGTGGAGTAGCCAATGAAGGAACAGACACTGGATACCTGCCCGCCAGTTCCATGTCCTCTGCCACCTCAGGGACTGCTCTTTCCCAAGAGGGAGGGAGAGAGAATGATACAGGAACAAAACAAGTGGGAGAAGCATCGGCGCCTGGAGACTGCTTGGACAGCACACCTCGAGTCCCCACTACTGTTTTCGACTTCCCTCCTCCTCTATTAGATCAAGTGCAGGAGGAGGAGTGTGAAGTAGAGAGGGTGGCAGAACATGGGACCCCAAAACCCTTTCGGAAGTTTGACAGCATCGCCTTTGGAGAAAGTCAGAGTGAGGATGAGCAGTTTGAAAATGACCTGGAGACAGATCCACCCAACTGGCAGCAGCTTGTTAGCAGAGAAGTGTTACTGGGACTGAAACCTTCTGAGATCAAAAGACAGGAAGTGATTAATGAATTGTTCTACACTGAGAGAGCTCATGTCCGGACACTGAAGGTTCTTGACCAAGTATTCTATCAGCGAGTGTCCAGAGAAGGGATTCTATCACCTTCAGAACTACGCAAGATTTTTTCAAACTTGGAAGATATCCTTCAACTTCATGTTGGGTTGAATGAGCAAATGAAAGCTGTCCGAAAAAGGAATGAAACTTCTGTTATTGATCATATTGGGGAAGATCTGCTCATCTGGTTTAGTGGACCAGGAGAGGAGAAGCTGAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAATTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGA
Peptide sequence:
MEIQKSRHPKHLSTPSSVSPEPQDPAKLRQSGVANEGTDTGYLPASSMSSATSGTALSQEGGRENDTGTKQVGEASAPGDCLDSTPRVPTTVFDFPPPLLDQVQEEECEVERVAEHGTPKPFRKFDSIAFGESQSEDEQFENDLETDPPNWQQLVSREVLLGLKPSEIKRQEVINELFYTERAHVRTLKVLDQVFYQRVSREGILSPSELRKIFSNLEDILQLHVGLNEQMKAVRKRNETSVIDHIGEDLLIWFSGPGEEKLKHAAATFCSNQPFALEMIKSRQKKDSRFHTFVQLAGPWRYRSHATRSTYPLPRL
IRESfinder result
IRESfinder score
0.602385318
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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