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mmu_circAtp6v0a1_1772
Basic information of circular RNA
PanCircBase ID:
mmu_circAtp6v0a1_1772
mm39_Chr. Position ID:
chr11|100920001|100946431|+
Gene name:
Atp6v0a1
Transcript:
ENSMUST00000103110.10
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
13
Exon/intron indexes:
8,9,10,11,12,13,14,15,16,17,18,19,20
Exon/intron offsets:
0,1234,4725,7546,8983,9514,10645,13774,14615,15340,19242,25850,26258
Genomic length:
26430
Exon/intron sizes in nt:
8,39,42,13,15,11,40,15,00,00,00,00,00,00,00,00,00,000
Flanking exon/introns:
chr11:100918219-100920001|chr11:100946431-100953137
Splice length:
1772
Other database IDs:
CIRCpedia: MMU_CIRCpedia_388, circAtlas: mmu-Atp6v0a1_0003
circAtlas: hsa-SCAF8_0001, CIRCpedia: HSA_CIRCpedia_78702
Human Ortholog IDs:
Mature spliced Sequence:
GGCGACTACGTGCACAAGTCTGTGTTCATCATTTTTTTCCAAGGCGATCAGCTGAAAAACAGGGTCAAGAAAATCTGTGAAGGGTTCCGAGCCTCCCTCTATCCCTGCCCTGAGACTCCACAGGAAAGGAAAGAAATGGCTTCCGGAGTCAATACCAGGATCGACGACCTCCAAATGGTTCTGAATCAGACGGAGGACCACCGCCAGAGGGTTCTGCAGGCAGCTGCTAAGAACATCCGCGTCTGGTTCATCAAGGTGCGGAAGATGAAGGCTATCTACCATACCCTGAACCTGTGCAATATAGACGTGACCCAGAAGTGCCTGATCGCAGAAGTCTGGTGCCCTGTCACTGACCTGGACTCCATCCAGTTTGCACTACGAAGAGGCACGGAACACAGTGGGTCCACTGTCCCCTCCATTCTGAACAGGATGCAGACAAACCAGACACCGCCGACATATAATAAAACCAACAAGTTCACGCACGGCTTCCAGAACATAGTAGATGCTTATGGGATCGGCACTTACCGAGAGATTAACCCAGCTCCGTACACTGTCATCACCTTCCCCTTTCTGTTTGCTGTGATGTTCGGAGATTTTGGGCACGGCATTTTGATGACGCTGTTTGCTGTGTGGATGGTGTTGAGGGAGAGCCGGATCCTCTCCCAGAAGCACGAGAATGAGATGTTTAGCATGGTGTTCAGCGGCCGGTACATTATTCTTCTGATGGGACTGTTCTCCATCTATACTGGACTCATCTACAATGACTGCTTTTCCAAGTCTCTGAATATCTTTGGGTCATCGTGGAGTGTACGGCCAATGTTCACTCAAGGGAACTGGACGGAGGAGACGCTTCTGGGGAGTTCTGTTCTCCAGTTGAACCCCGCTATCCCTGGAGTTTTTGGTGGCCCGTACCCGTTTGGCATTGATCCGATTTGGAACATTGCAACCAACAAGCTGACCTTCCTCAACTCCTTCAAGATGAAGATGTCTGTTATCCTCGGCATCATCCACATGCTGTTTGGAGTCAGCCTGAGCCTTTTCAACCATATCTATTTCAAGAAGCCCCTGAACATCTACTTTGGCTTTATTCCTGAGATCATCTTCATGTCCTCGTTGTTTGGCTACCTGGTCATCCTTATCTTTTACAAGTGGACAGCCTACGATGCCCACTCGTCTAGGAATGCCCCGAGCCTCCTGATCCACTTCATAAACATGTTCCTCTTCTCCTACCCAGAGTCTGGTAATGCAATGCTGTACTCTGGACAGAAAGGAATTCAGTGTTTCCTCATCGTGGTGGCGATGCTCTGCGTCCCTTGGATGCTTCTGTTTAAGCCGCTGATCCTTCGCCATCAGTACCTGAGGAAGAAGCATTTGGGAACTCTCAACTTTGGTGGGATCAGGGTGGGCAACGGACCGACAGAGGAGGATGCTGAAATTATTCAGCATGACCAGCTTTCCACCCATTCAGAGGACGCAGAAGAGTTTGACTTTGGCGACACCATGGTCCACCAGGCCATCCACACCATTGAGTACTGCTTGGGTTGTATCTCCAACACCGCGTCGTACCTGCGACTCTGGGCCCTCAGCCTGGCCCACGCACAGCTCTCTGAAGTACTTTGGACCATGGTGATCCACATTGGCCTGCACGTCCGGAGTTTGGCCGGGGGTCTAGGGCTGTTTTTCATCTTCGCCGCCTTTGCCACGCTGACCGTGGCTATCCTGCTGATCATGGAGGGCCTCTCGGCCTTCCTCCACGCGCTGCGGTTACACTG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTTCATCTTCGCCGCC
59.76
TCAGCTGATCGCCTTGGAAA
59.68
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGTTTTTCATCTTCGCCGCC
59.76
TTCAGCTGATCGCCTTGGAA
59.68
153
PCR template sequence:
GGCTGTTTTTCATCTTCGCCGCCTTTGCCACGCTGACCGTGGCTATCCTGCTGATCATGGAGGGCCTCTCGGCCTTCCTCCACGCGCTGCGGTTACACTGGGCGACTACGTGCACAAGTCTGTGTTCATCATTTTTTTCCAAGGCGATCAGCTGAAAAACAGGGTCAAGAAAATCTGTGAAGGGTTCCGAGCCTCCCTCT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
11
Interacting miRNAs (#binding sites)
mmu-miR-210-3p(1), mmu-miR-34c-5p(1), mmu-miR-34a-5p(1), mmu-miR-92a-3p(1), mmu-miR-25-3p(1), mmu-miR-214-3p(1), mmu-miR-363-3p(1), mmu-miR-22-3p(1), mmu-miR-212-3p(1), mmu-miR-125b-1-3p(1), mmu-miR-34b-5p(1)
siRNAs for circular RNA silencing
Junction sequence
TGCGGTTACACTGGGCGACTACGTGC
siRNA sets
TAGTCGCCCAGTGTAACCG, GTAGTCGCCCAGTGTAACC, AGTCGCCCAGTGTAACCGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCATP6V0A1_1772_ORF_1
1.2867
0.319987104
0.999974713
1692
ORF sequence:
ATGGCTTCCGGAGTCAATACCAGGATCGACGACCTCCAAATGGTTCTGAATCAGACGGAGGACCACCGCCAGAGGGTTCTGCAGGCAGCTGCTAAGAACATCCGCGTCTGGTTCATCAAGGTGCGGAAGATGAAGGCTATCTACCATACCCTGAACCTGTGCAATATAGACGTGACCCAGAAGTGCCTGATCGCAGAAGTCTGGTGCCCTGTCACTGACCTGGACTCCATCCAGTTTGCACTACGAAGAGGCACGGAACACAGTGGGTCCACTGTCCCCTCCATTCTGAACAGGATGCAGACAAACCAGACACCGCCGACATATAATAAAACCAACAAGTTCACGCACGGCTTCCAGAACATAGTAGATGCTTATGGGATCGGCACTTACCGAGAGATTAACCCAGCTCCGTACACTGTCATCACCTTCCCCTTTCTGTTTGCTGTGATGTTCGGAGATTTTGGGCACGGCATTTTGATGACGCTGTTTGCTGTGTGGATGGTGTTGAGGGAGAGCCGGATCCTCTCCCAGAAGCACGAGAATGAGATGTTTAGCATGGTGTTCAGCGGCCGGTACATTATTCTTCTGATGGGACTGTTCTCCATCTATACTGGACTCATCTACAATGACTGCTTTTCCAAGTCTCTGAATATCTTTGGGTCATCGTGGAGTGTACGGCCAATGTTCACTCAAGGGAACTGGACGGAGGAGACGCTTCTGGGGAGTTCTGTTCTCCAGTTGAACCCCGCTATCCCTGGAGTTTTTGGTGGCCCGTACCCGTTTGGCATTGATCCGATTTGGAACATTGCAACCAACAAGCTGACCTTCCTCAACTCCTTCAAGATGAAGATGTCTGTTATCCTCGGCATCATCCACATGCTGTTTGGAGTCAGCCTGAGCCTTTTCAACCATATCTATTTCAAGAAGCCCCTGAACATCTACTTTGGCTTTATTCCTGAGATCATCTTCATGTCCTCGTTGTTTGGCTACCTGGTCATCCTTATCTTTTACAAGTGGACAGCCTACGATGCCCACTCGTCTAGGAATGCCCCGAGCCTCCTGATCCACTTCATAAACATGTTCCTCTTCTCCTACCCAGAGTCTGGTAATGCAATGCTGTACTCTGGACAGAAAGGAATTCAGTGTTTCCTCATCGTGGTGGCGATGCTCTGCGTCCCTTGGATGCTTCTGTTTAAGCCGCTGATCCTTCGCCATCAGTACCTGAGGAAGAAGCATTTGGGAACTCTCAACTTTGGTGGGATCAGGGTGGGCAACGGACCGACAGAGGAGGATGCTGAAATTATTCAGCATGACCAGCTTTCCACCCATTCAGAGGACGCAGAAGAGTTTGACTTTGGCGACACCATGGTCCACCAGGCCATCCACACCATTGAGTACTGCTTGGGTTGTATCTCCAACACCGCGTCGTACCTGCGACTCTGGGCCCTCAGCCTGGCCCACGCACAGCTCTCTGAAGTACTTTGGACCATGGTGATCCACATTGGCCTGCACGTCCGGAGTTTGGCCGGGGGTCTAGGGCTGTTTTTCATCTTCGCCGCCTTTGCCACGCTGACCGTGGCTATCCTGCTGATCATGGAGGGCCTCTCGGCCTTCCTCCACGCGCTGCGGTTACACTGGGCGACTACGTGCACAAGTCTGTGTTCATCATTTTTTTCCAAGGCGATCAGCTGA
Peptide sequence:
MASGVNTRIDDLQMVLNQTEDHRQRVLQAAAKNIRVWFIKVRKMKAIYHTLNLCNIDVTQKCLIAEVWCPVTDLDSIQFALRRGTEHSGSTVPSILNRMQTNQTPPTYNKTNKFTHGFQNIVDAYGIGTYREINPAPYTVITFPFLFAVMFGDFGHGILMTLFAVWMVLRESRILSQKHENEMFSMVFSGRYIILLMGLFSIYTGLIYNDCFSKSLNIFGSSWSVRPMFTQGNWTEETLLGSSVLQLNPAIPGVFGGPYPFGIDPIWNIATNKLTFLNSFKMKMSVILGIIHMLFGVSLSLFNHIYFKKPLNIYFGFIPEIIFMSSLFGYLVILIFYKWTAYDAHSSRNAPSLLIHFINMFLFSYPESGNAMLYSGQKGIQCFLIVVAMLCVPWMLLFKPLILRHQYLRKKHLGTLNFGGIRVGNGPTEEDAEIIQHDQLSTHSEDAEEFDFGDTMVHQAIHTIEYCLGCISNTASYLRLWALSLAHAQLSEVLWTMVIHIGLHVRSLAGGLGLFFIFAAFATLTVAILLIMEGLSAFLHALRLHWATTCTSLCSSFFSKAIS
IRESfinder result
IRESfinder score
0.515630084
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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