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mmu_circArhgef12_1117
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef12_1117
mm39_Chr. Position ID:
chr9|42895669|42910467|-
Gene name:
Arhgef12
Transcript:
ENSMUST00000165665.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
29,28,27,26,25,24,23,22,21
Exon/intron offsets:
0,2088,4586,5601,7500,8162,8615,13200,14692
Genomic length:
14798
Exon/intron sizes in nt:
11,51,26,86,14,71,55,30,00,00,00,000
Flanking exon/introns:
chr9:42893344-42895669|chr9:42910467-42911243
Splice length:
1117
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
CAAAGCATGAAGAAAGATAGAGAGGGCGAAGAAAAAGGGAAGCGAAGAGGATTCCCCAGCATTTTGGGACCCCCAAGAAGACCAAGCCGCCACGACAACAGTGCAATTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCAGAGTGGAGTAGCCAATGAAGGAACAGACACTGGATACCTGCCCGCCAGTTCCATGTCCTCTGCCACCTCAGGGACTGCTCTTTCCCAAGAGGGAGGGAGAGAGAATGATACAGGAACAAAACAAGTGGGAGAAGCATCGGCGCCTGGAGACTGCTTGGACAGCACACCTCGAGTCCCCACTACTGTTTTCGACTTCCCTCCTCCTCTATTAGATCAAGTGCAGGAGGAGGAGTGTGAAGTAGAGAGGGTGGCAGAACATGGGACCCCAAAACCCTTTCGGAAGTTTGACAGCATCGCCTTTGGAGAAAGTCAGAGTGAGGATGAGCAGTTTGAAAATGACCTGGAGACAGATCCACCCAACTGGCAGCAGCTTGTTAGCAGAGAAGTGTTACTGGGACTGAAACCTTCTGAGATCAAAAGACAGGAAGTGATTAATGAATTGTTCTACACTGAGAGAGCTCATGTCCGGACACTGAAGGTTCTTGACCAAGTATTCTATCAGCGAGTGTCCAGAGAAGGGATTCTATCACCTTCAGAACTACGCAAGATTTTTTCAAACTTGGAAGATATCCTTCAACTTCATGTTGGGTTGAATGAGCAAATGAAAGCTGTCCGAAAAAGGAATGAAACTTCTGTTATTGATCATATTGGGGAAGATCTGCTCATCTGGTTTAGTGGACCAGGAGAGGAGAAGCTGAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAAGACGCTGAGAGTAACCCCCTGTGCCGTCGTCTTCAGCTGAAGGACATCATTCCCACCCAAATGCAGAGACTCACTAAGTACCCGCTTCTTTTGGATAACATTGCCAAGTACACAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TCCCACCCAAATGCAGAGAC
59.96
CTTGGTCTTCTTGGGGGTCC
59.96
151
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCACCCAAATGCAGAGACT
59.96
CTTGGTCTTCTTGGGGGTCC
59.96
150
PCR template sequence:
CCCCTGTGCCGTCGTCTTCAGCTGAAGGACATCATTCCCACCCAAATGCAGAGACTCACTAAGTACCCGCTTCTTTTGGATAACATTGCCAAGTACACAGCAAAGCATGAAGAAAGATAGAGAGGGCGAAGAAAAAGGGAAGCGAAGAGGATTCCCCAGCATTTTGGGACCCCCAAGAAGACCAAGCCGCCACGACAACA
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-15a-5p(1), mmu-miR-103-3p(1), mmu-miR-92a-3p(1), mmu-miR-211-5p(1), mmu-miR-204-5p(1), mmu-miR-322-5p(1), mmu-miR-15b-5p(1), mmu-miR-25-3p(1), mmu-miR-24-3p(1), mmu-miR-182-5p(1), mmu-miR-107-3p(1), mmu-miR-802-5p(1), mmu-miR-207(1)
siRNAs for circular RNA silencing
Junction sequence
GCCAAGTACACAGCAAAGCATGAAGA
siRNA sets
TTCATGCTTTGCTGTGTAC, TCATGCTTTGCTGTGTACT, TGCTTTGCTGTGTACTTGG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF12_1117_ORF_1
0.9633
0.236572816
0.996406319
1131
ORF sequence:
ATGAAGAAAGATAGAGAGGGCGAAGAAAAAGGGAAGCGAAGAGGATTCCCCAGCATTTTGGGACCCCCAAGAAGACCAAGCCGCCACGACAACAGTGCAATTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCAGAGTGGAGTAGCCAATGAAGGAACAGACACTGGATACCTGCCCGCCAGTTCCATGTCCTCTGCCACCTCAGGGACTGCTCTTTCCCAAGAGGGAGGGAGAGAGAATGATACAGGAACAAAACAAGTGGGAGAAGCATCGGCGCCTGGAGACTGCTTGGACAGCACACCTCGAGTCCCCACTACTGTTTTCGACTTCCCTCCTCCTCTATTAGATCAAGTGCAGGAGGAGGAGTGTGAAGTAGAGAGGGTGGCAGAACATGGGACCCCAAAACCCTTTCGGAAGTTTGACAGCATCGCCTTTGGAGAAAGTCAGAGTGAGGATGAGCAGTTTGAAAATGACCTGGAGACAGATCCACCCAACTGGCAGCAGCTTGTTAGCAGAGAAGTGTTACTGGGACTGAAACCTTCTGAGATCAAAAGACAGGAAGTGATTAATGAATTGTTCTACACTGAGAGAGCTCATGTCCGGACACTGAAGGTTCTTGACCAAGTATTCTATCAGCGAGTGTCCAGAGAAGGGATTCTATCACCTTCAGAACTACGCAAGATTTTTTCAAACTTGGAAGATATCCTTCAACTTCATGTTGGGTTGAATGAGCAAATGAAAGCTGTCCGAAAAAGGAATGAAACTTCTGTTATTGATCATATTGGGGAAGATCTGCTCATCTGGTTTAGTGGACCAGGAGAGGAGAAGCTGAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAAGACGCTGAGAGTAACCCCCTGTGCCGTCGTCTTCAGCTGAAGGACATCATTCCCACCCAAATGCAGAGACTCACTAAGTACCCGCTTCTTTTGGATAACATTGCCAAGTACACAGCAAAGCATGAAGAAAGATAG
Peptide sequence:
MKKDREGEEKGKRRGFPSILGPPRRPSRHDNSAIGRAMEIQKSRHPKHLSTPSSVSPEPQDPAKLRQSGVANEGTDTGYLPASSMSSATSGTALSQEGGRENDTGTKQVGEASAPGDCLDSTPRVPTTVFDFPPPLLDQVQEEECEVERVAEHGTPKPFRKFDSIAFGESQSEDEQFENDLETDPPNWQQLVSREVLLGLKPSEIKRQEVINELFYTERAHVRTLKVLDQVFYQRVSREGILSPSELRKIFSNLEDILQLHVGLNEQMKAVRKRNETSVIDHIGEDLLIWFSGPGEEKLKHAAATFCSNQPFALEMIKSRQKKDSRFHTFVQDAESNPLCRRLQLKDIIPTQMQRLTKYPLLLDNIAKYTAKHEER
IRESfinder result
IRESfinder score
0.576706429
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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