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mmu_circArhgef12_1653
Basic information of circular RNA
PanCircBase ID:
mmu_circArhgef12_1653
mm39_Chr. Position ID:
chr9|42893243|42913196|-
Gene name:
Arhgef12
Transcript:
ENSMUST00000165665.9
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
15
Exon/intron indexes:
30,29,28,27,26,25,24,23,22,21,20,19,18,17,16
Exon/intron offsets:
0,2426,4514,7012,8027,9926,10588,11041,15626,17118,18000,18409,19021,19498,19910
Genomic length:
19953
Exon/intron sizes in nt:
101,115,126,86,147,155,36,133,213,106,115,33,138,106,43
Flanking exon/introns:
chr9:42890769-42893243|chr9:42913196-42916839
Splice length:
1653
Other database IDs:
circAtlas: mmu-Arhgef12_0033
Human Ortholog IDs:
Mature spliced Sequence:
CACCTGAAGGTTCCAGTTCCTGAGGAAATCTCCGTGGATCTAGAAAAGAGAAGACCTGAGCTTATTCCTGAGGATCTGCATCGCCTCTACATTCAGACAATGCAGGAGAGAGTCCACCCTGAAGTTCAGAGGCACTTGGAGGATTTCCGACAGAAACGCAGCATGGGGCTGACCTTGGCTGAGAGTGAGCTGACTAAACTTGATGCAGAGAGAGACAAGGACCGGGGAACTCTGGAGAAGGAGCGAGCATGTGCGGAACAGATCGTTACCAAAATTGAAGAAGTGTTGATGACTGCTCAGGCTGTAGAAGAAGAAAGGAGTTCCACAATGCAGTATGTAATTCTCATGTATATGAAGTATTTGGGAGTAAAAGTGAAAGAACCTCGAAACTTGGAGCACAAGCGGGGTCGGATCGGCTTCCTTCCAAAGATCAAGCAAAGCATGAAGAAAGATAGAGAGGGCGAAGAAAAAGGGAAGCGAAGAGGATTCCCCAGCATTTTGGGACCCCCAAGAAGACCAAGCCGCCACGACAACAGTGCAATTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCAGAGTGGAGTAGCCAATGAAGGAACAGACACTGGATACCTGCCCGCCAGTTCCATGTCCTCTGCCACCTCAGGGACTGCTCTTTCCCAAGAGGGAGGGAGAGAGAATGATACAGGAACAAAACAAGTGGGAGAAGCATCGGCGCCTGGAGACTGCTTGGACAGCACACCTCGAGTCCCCACTACTGTTTTCGACTTCCCTCCTCCTCTATTAGATCAAGTGCAGGAGGAGGAGTGTGAAGTAGAGAGGGTGGCAGAACATGGGACCCCAAAACCCTTTCGGAAGTTTGACAGCATCGCCTTTGGAGAAAGTCAGAGTGAGGATGAGCAGTTTGAAAATGACCTGGAGACAGATCCACCCAACTGGCAGCAGCTTGTTAGCAGAGAAGTGTTACTGGGACTGAAACCTTCTGAGATCAAAAGACAGGAAGTGATTAATGAATTGTTCTACACTGAGAGAGCTCATGTCCGGACACTGAAGGTTCTTGACCAAGTATTCTATCAGCGAGTGTCCAGAGAAGGGATTCTATCACCTTCAGAACTACGCAAGATTTTTTCAAACTTGGAAGATATCCTTCAACTTCATGTTGGGTTGAATGAGCAAATGAAAGCTGTCCGAAAAAGGAATGAAACTTCTGTTATTGATCATATTGGGGAAGATCTGCTCATCTGGTTTAGTGGACCAGGAGAGGAGAAGCTGAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAAGACGCTGAGAGTAACCCCCTGTGCCGTCGTCTTCAGCTGAAGGACATCATTCCCACCCAAATGCAGAGACTCACTAAGTACCCGCTTCTTTTGGATAACATTGCCAAGTACACAGAATGGCCTCCAGAAAGGGAAAAGGTGAAGAAGGCTGCAGACCATTGTCGTCAGATCTTAAATTATGTAAATCAGGCTGTCAGGGAGGCAGAAAACAAGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGAAGAAGGCTGCAGAC
59.96
GCGATGCAGATCCTCAGGAA
59.89
164
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
AGGTGAAGAAGGCTGCAGAC
59.96
GAGGCGATGCAGATCCTCAG
60.32
167
PCR template sequence:
ATGGCCTCCAGAAAGGGAAAAGGTGAAGAAGGCTGCAGACCATTGTCGTCAGATCTTAAATTATGTAAATCAGGCTGTCAGGGAGGCAGAAAACAAGCAGCACCTGAAGGTTCCAGTTCCTGAGGAAATCTCCGTGGATCTAGAAAAGAGAAGACCTGAGCTTATTCCTGAGGATCTGCATCGCCTCTACATTCAGACAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
15
Interacting miRNAs (#binding sites)
mmu-miR-33-5p(2), mmu-miR-207(2), 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-217-5p(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)
siRNAs for circular RNA silencing
Junction sequence
AGAAAACAAGCAGCACCTGAAGGTTC
siRNA sets
AACCTTCAGGTGCTGCTTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCARHGEF12_1653_ORF_1
1.0783
0.265766559
0.999999999
3207
ORF sequence:
ATGCAGGAGAGAGTCCACCCTGAAGTTCAGAGGCACTTGGAGGATTTCCGACAGAAACGCAGCATGGGGCTGACCTTGGCTGAGAGTGAGCTGACTAAACTTGATGCAGAGAGAGACAAGGACCGGGGAACTCTGGAGAAGGAGCGAGCATGTGCGGAACAGATCGTTACCAAAATTGAAGAAGTGTTGATGACTGCTCAGGCTGTAGAAGAAGAAAGGAGTTCCACAATGCAGTATGTAATTCTCATGTATATGAAGTATTTGGGAGTAAAAGTGAAAGAACCTCGAAACTTGGAGCACAAGCGGGGTCGGATCGGCTTCCTTCCAAAGATCAAGCAAAGCATGAAGAAAGATAGAGAGGGCGAAGAAAAAGGGAAGCGAAGAGGATTCCCCAGCATTTTGGGACCCCCAAGAAGACCAAGCCGCCACGACAACAGTGCAATTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCAGAGTGGAGTAGCCAATGAAGGAACAGACACTGGATACCTGCCCGCCAGTTCCATGTCCTCTGCCACCTCAGGGACTGCTCTTTCCCAAGAGGGAGGGAGAGAGAATGATACAGGAACAAAACAAGTGGGAGAAGCATCGGCGCCTGGAGACTGCTTGGACAGCACACCTCGAGTCCCCACTACTGTTTTCGACTTCCCTCCTCCTCTATTAGATCAAGTGCAGGAGGAGGAGTGTGAAGTAGAGAGGGTGGCAGAACATGGGACCCCAAAACCCTTTCGGAAGTTTGACAGCATCGCCTTTGGAGAAAGTCAGAGTGAGGATGAGCAGTTTGAAAATGACCTGGAGACAGATCCACCCAACTGGCAGCAGCTTGTTAGCAGAGAAGTGTTACTGGGACTGAAACCTTCTGAGATCAAAAGACAGGAAGTGATTAATGAATTGTTCTACACTGAGAGAGCTCATGTCCGGACACTGAAGGTTCTTGACCAAGTATTCTATCAGCGAGTGTCCAGAGAAGGGATTCTATCACCTTCAGAACTACGCAAGATTTTTTCAAACTTGGAAGATATCCTTCAACTTCATGTTGGGTTGAATGAGCAAATGAAAGCTGTCCGAAAAAGGAATGAAACTTCTGTTATTGATCATATTGGGGAAGATCTGCTCATCTGGTTTAGTGGACCAGGAGAGGAGAAGCTGAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAAGACGCTGAGAGTAACCCCCTGTGCCGTCGTCTTCAGCTGAAGGACATCATTCCCACCCAAATGCAGAGACTCACTAAGTACCCGCTTCTTTTGGATAACATTGCCAAGTACACAGAATGGCCTCCAGAAAGGGAAAAGGTGAAGAAGGCTGCAGACCATTGTCGTCAGATCTTAAATTATGTAAATCAGGCTGTCAGGGAGGCAGAAAACAAGCAGCACCTGAAGGTTCCAGTTCCTGAGGAAATCTCCGTGGATCTAGAAAAGAGAAGACCTGAGCTTATTCCTGAGGATCTGCATCGCCTCTACATTCAGACAATGCAGGAGAGAGTCCACCCTGAAGTTCAGAGGCACTTGGAGGATTTCCGACAGAAACGCAGCATGGGGCTGACCTTGGCTGAGAGTGAGCTGACTAAACTTGATGCAGAGAGAGACAAGGACCGGGGAACTCTGGAGAAGGAGCGAGCATGTGCGGAACAGATCGTTACCAAAATTGAAGAAGTGTTGATGACTGCTCAGGCTGTAGAAGAAGAAAGGAGTTCCACAATGCAGTATGTAATTCTCATGTATATGAAGTATTTGGGAGTAAAAGTGAAAGAACCTCGAAACTTGGAGCACAAGCGGGGTCGGATCGGCTTCCTTCCAAAGATCAAGCAAAGCATGAAGAAAGATAGAGAGGGCGAAGAAAAAGGGAAGCGAAGAGGATTCCCCAGCATTTTGGGACCCCCAAGAAGACCAAGCCGCCACGACAACAGTGCAATTGGCAGGGCCATGGAGATACAGAAGTCACGCCACCCGAAGCACTTATCCACTCCCTCGTCTGTGAGTCCTGAGCCTCAGGACCCTGCCAAGTTGCGCCAGAGTGGAGTAGCCAATGAAGGAACAGACACTGGATACCTGCCCGCCAGTTCCATGTCCTCTGCCACCTCAGGGACTGCTCTTTCCCAAGAGGGAGGGAGAGAGAATGATACAGGAACAAAACAAGTGGGAGAAGCATCGGCGCCTGGAGACTGCTTGGACAGCACACCTCGAGTCCCCACTACTGTTTTCGACTTCCCTCCTCCTCTATTAGATCAAGTGCAGGAGGAGGAGTGTGAAGTAGAGAGGGTGGCAGAACATGGGACCCCAAAACCCTTTCGGAAGTTTGACAGCATCGCCTTTGGAGAAAGTCAGAGTGAGGATGAGCAGTTTGAAAATGACCTGGAGACAGATCCACCCAACTGGCAGCAGCTTGTTAGCAGAGAAGTGTTACTGGGACTGAAACCTTCTGAGATCAAAAGACAGGAAGTGATTAATGAATTGTTCTACACTGAGAGAGCTCATGTCCGGACACTGAAGGTTCTTGACCAAGTATTCTATCAGCGAGTGTCCAGAGAAGGGATTCTATCACCTTCAGAACTACGCAAGATTTTTTCAAACTTGGAAGATATCCTTCAACTTCATGTTGGGTTGAATGAGCAAATGAAAGCTGTCCGAAAAAGGAATGAAACTTCTGTTATTGATCATATTGGGGAAGATCTGCTCATCTGGTTTAGTGGACCAGGAGAGGAGAAGCTGAAACATGCTGCTGCCACATTCTGCAGTAACCAACCTTTCGCCCTGGAAATGATCAAGTCTCGCCAGAAAAAGGATTCTCGATTCCATACTTTTGTGCAAGACGCTGAGAGTAACCCCCTGTGCCGTCGTCTTCAGCTGAAGGACATCATTCCCACCCAAATGCAGAGACTCACTAAGTACCCGCTTCTTTTGGATAACATTGCCAAGTACACAGAATGGCCTCCAGAAAGGGAAAAGGTGAAGAAGGCTGCAGACCATTGTCGTCAGATCTTAAATTATGTAAATCAGGCTGTCAGGGAGGCAGAAAACAAGCAG
Peptide sequence:
MQERVHPEVQRHLEDFRQKRSMGLTLAESELTKLDAERDKDRGTLEKERACAEQIVTKIEEVLMTAQAVEEERSSTMQYVILMYMKYLGVKVKEPRNLEHKRGRIGFLPKIKQSMKKDREGEEKGKRRGFPSILGPPRRPSRHDNSAIGRAMEIQKSRHPKHLSTPSSVSPEPQDPAKLRQSGVANEGTDTGYLPASSMSSATSGTALSQEGGRENDTGTKQVGEASAPGDCLDSTPRVPTTVFDFPPPLLDQVQEEECEVERVAEHGTPKPFRKFDSIAFGESQSEDEQFENDLETDPPNWQQLVSREVLLGLKPSEIKRQEVINELFYTERAHVRTLKVLDQVFYQRVSREGILSPSELRKIFSNLEDILQLHVGLNEQMKAVRKRNETSVIDHIGEDLLIWFSGPGEEKLKHAAATFCSNQPFALEMIKSRQKKDSRFHTFVQDAESNPLCRRLQLKDIIPTQMQRLTKYPLLLDNIAKYTEWPPEREKVKKAADHCRQILNYVNQAVREAENKQHLKVPVPEEISVDLEKRRPELIPEDLHRLYIQTMQERVHPEVQRHLEDFRQKRSMGLTLAESELTKLDAERDKDRGTLEKERACAEQIVTKIEEVLMTAQAVEEERSSTMQYVILMYMKYLGVKVKEPRNLEHKRGRIGFLPKIKQSMKKDREGEEKGKRRGFPSILGPPRRPSRHDNSAIGRAMEIQKSRHPKHLSTPSSVSPEPQDPAKLRQSGVANEGTDTGYLPASSMSSATSGTALSQEGGRENDTGTKQVGEASAPGDCLDSTPRVPTTVFDFPPPLLDQVQEEECEVERVAEHGTPKPFRKFDSIAFGESQSEDEQFENDLETDPPNWQQLVSREVLLGLKPSEIKRQEVINELFYTERAHVRTLKVLDQVFYQRVSREGILSPSELRKIFSNLEDILQLHVGLNEQMKAVRKRNETSVIDHIGEDLLIWFSGPGEEKLKHAAATFCSNQPFALEMIKSRQKKDSRFHTFVQDAESNPLCRRLQLKDIIPTQMQRLTKYPLLLDNIAKYTEWPPEREKVKKAADHCRQILNYVNQAVREAENKQ
IRESfinder result
IRESfinder score
0.518329191
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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