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mmu_circAgo4_1258
Basic information of circular RNA
PanCircBase ID:
mmu_circAgo4_1258
mm39_Chr. Position ID:
chr4|126403743|126411350|-
Gene name:
Ago4
Transcript:
ENSMUST00000084289.5
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
9
Exon/intron indexes:
12,11,10,9,8,7,6,5,4
Exon/intron offsets:
0,1449,1775,2048,2569,5936,6886,7119,7425
Genomic length:
7607
Exon/intron sizes in nt:
1,85,13,41,29,12,01,48,00,00,00,00,000
Flanking exon/introns:
chr4:126402300-126403743|chr4:126411350-126413983
Splice length:
1258
Other database IDs:
Human Ortholog IDs:
Mature spliced Sequence:
ATTGATATGGAGGTGACCCTCCCAGGTGAGGGTAAAGACCAAACTTTCAAAGTGTCTGTGCAGTGGGTGTCAGTTGTGAGCCTTCAGCTGCTTTTAGAAGCTTTAGCAGGACACCTGAATGAAGTCCCAGATGACTCAGTACAAGCACTTGATGTGATTACAAGGCATCTCCCCTCTATGAGGTACACTCCAGTAGGCCGGTCTTTTTTCTCACCTCCTGAAGGTTATTACCACCCTCTGGGAGGGGGCAGAGAGGTTTGGTTTGGCTTTCATCAGTCTGTGAGACCTGCCATGTGGAATATGATGCTCAATATTGATGTATCTGCAACTGCTTTCTACCGGGCTCAACCTATCATTGAGTTCATGTGTGAGGTTTTAGACATTCAGAACATCAATGAGCAGACAAAACCTCTAACAGACTCCCAGCGTGTCAAGTTTACCAAAGAAATTAGGGGTCTTAAGGTTGAGGTGACTCACTGTGGACAGATGAAACGAAAATATCGAGTTTGTAATGTGACAAGACGGCCAGCCAGTCATCAAACCTTCCCTTTGCAGCTAGAGAATGGCCAAGCTATGGAATGTACAGTGGCTCAGTATTTTAAGCAGAAGTATAGTCTGCAGCTGAAACACCCCCACCTTCCCTGCCTTCAAGTGGGGCAAGAGCAAAAGCATACCTACCTACCACTTGAGGTCTGTAATATAGTGGCAGGACAGAGATGTATAAAGAAGCTCACAGACAATCAGACATCCACCATGATCAAAGCCACGGCAAGATCTGCTCCTGACAGACAGGAGGAAATCAGTAGACTGGTGAAGAGCAACAGCATGGTGGGTGGACCTGACCCATACCTGAAGGAATTTGGGATTGTTGTGCACAACGAGATGACAGAGCTCACAGGCAGGGTGCTTCCGGCTCCAATGCTGCAGTATGGAGGCCGGAATAAAACAGTAGCCACACCCAGCCAGGGTGTCTGGGACATGCGAGGAAAACAGTTTTATGCTGGCATTGAAATTAAAGTATGGGCAGTGGCTTGTTTTGCGCCTCAGAAACAATGTAGGGAAGATTTGCTAAAGAGTTTCACTGACCAACTTCGTAAAATCTCCAAGGATGCAGGGATGCCCATCCAGGGTCAGCCATGTTTCTGCAAGTATGCTCAAGGTGCAGACAGCGTGGAGCCCATGTTTAAACATCTGAAAATGACATATGTGGGCCTGCAGCTAATAGTGGTGATTTTGCCTGGGAAGACACCAGTATATG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
TGACATATGTGGGCCTGCAG
60.11
AAGGCTCACAACTGACACCC
60.18
144
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
TGACATATGTGGGCCTGCAG
60.11
GCTCACAACTGACACCCACT
60.18
141
PCR template sequence:
GGTGCAGACAGCGTGGAGCCCATGTTTAAACATCTGAAAATGACATATGTGGGCCTGCAGCTAATAGTGGTGATTTTGCCTGGGAAGACACCAGTATATGATTGATATGGAGGTGACCCTCCCAGGTGAGGGTAAAGACCAAACTTTCAAAGTGTCTGTGCAGTGGGTGTCAGTTGTGAGCCTTCAGCTGCTTTTAGAAG
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
12
Interacting miRNAs (#binding sites)
mmu-miR-9-5p(1), mmu-miR-103-3p(1), mmu-miR-324-5p(1), mmu-miR-23a-3p(1), mmu-miR-128-3p(1), mmu-miR-370-3p(1), mmu-miR-362-5p(1), mmu-miR-107-3p(1), mmu-miR-342-3p(1), mmu-miR-3105-3p(1), mmu-miR-323-3p(1), mmu-miR-338-3p(1)
siRNAs for circular RNA silencing
Junction sequence
ACACCAGTATATGATTGATATGGAGG
siRNA sets
ATCAATCATATACTGGTGT, TATCAATCATATACTGGTG
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCAGO4_1258_ORF_1
1.0404
0.122773321
0.998029334
1260
ORF sequence:
ATGATTGATATGGAGGTGACCCTCCCAGGTGAGGGTAAAGACCAAACTTTCAAAGTGTCTGTGCAGTGGGTGTCAGTTGTGAGCCTTCAGCTGCTTTTAGAAGCTTTAGCAGGACACCTGAATGAAGTCCCAGATGACTCAGTACAAGCACTTGATGTGATTACAAGGCATCTCCCCTCTATGAGGTACACTCCAGTAGGCCGGTCTTTTTTCTCACCTCCTGAAGGTTATTACCACCCTCTGGGAGGGGGCAGAGAGGTTTGGTTTGGCTTTCATCAGTCTGTGAGACCTGCCATGTGGAATATGATGCTCAATATTGATGTATCTGCAACTGCTTTCTACCGGGCTCAACCTATCATTGAGTTCATGTGTGAGGTTTTAGACATTCAGAACATCAATGAGCAGACAAAACCTCTAACAGACTCCCAGCGTGTCAAGTTTACCAAAGAAATTAGGGGTCTTAAGGTTGAGGTGACTCACTGTGGACAGATGAAACGAAAATATCGAGTTTGTAATGTGACAAGACGGCCAGCCAGTCATCAAACCTTCCCTTTGCAGCTAGAGAATGGCCAAGCTATGGAATGTACAGTGGCTCAGTATTTTAAGCAGAAGTATAGTCTGCAGCTGAAACACCCCCACCTTCCCTGCCTTCAAGTGGGGCAAGAGCAAAAGCATACCTACCTACCACTTGAGGTCTGTAATATAGTGGCAGGACAGAGATGTATAAAGAAGCTCACAGACAATCAGACATCCACCATGATCAAAGCCACGGCAAGATCTGCTCCTGACAGACAGGAGGAAATCAGTAGACTGGTGAAGAGCAACAGCATGGTGGGTGGACCTGACCCATACCTGAAGGAATTTGGGATTGTTGTGCACAACGAGATGACAGAGCTCACAGGCAGGGTGCTTCCGGCTCCAATGCTGCAGTATGGAGGCCGGAATAAAACAGTAGCCACACCCAGCCAGGGTGTCTGGGACATGCGAGGAAAACAGTTTTATGCTGGCATTGAAATTAAAGTATGGGCAGTGGCTTGTTTTGCGCCTCAGAAACAATGTAGGGAAGATTTGCTAAAGAGTTTCACTGACCAACTTCGTAAAATCTCCAAGGATGCAGGGATGCCCATCCAGGGTCAGCCATGTTTCTGCAAGTATGCTCAAGGTGCAGACAGCGTGGAGCCCATGTTTAAACATCTGAAAATGACATATGTGGGCCTGCAGCTAATAGTGGTGATTTTGCCTGGGAAGACACCAGTATAT
Peptide sequence:
MIDMEVTLPGEGKDQTFKVSVQWVSVVSLQLLLEALAGHLNEVPDDSVQALDVITRHLPSMRYTPVGRSFFSPPEGYYHPLGGGREVWFGFHQSVRPAMWNMMLNIDVSATAFYRAQPIIEFMCEVLDIQNINEQTKPLTDSQRVKFTKEIRGLKVEVTHCGQMKRKYRVCNVTRRPASHQTFPLQLENGQAMECTVAQYFKQKYSLQLKHPHLPCLQVGQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIKATARSAPDRQEEISRLVKSNSMVGGPDPYLKEFGIVVHNEMTELTGRVLPAPMLQYGGRNKTVATPSQGVWDMRGKQFYAGIEIKVWAVACFAPQKQCREDLLKSFTDQLRKISKDAGMPIQGQPCFCKYAQGADSVEPMFKHLKMTYVGLQLIVVILPGKTPVY
IRESfinder result
IRESfinder score
0.591450132
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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