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mmu_circAdamts6_1788
Basic information of circular RNA
PanCircBase ID:
mmu_circAdamts6_1788
mm39_Chr. Position ID:
chr13|104430954|104506298|+
Gene name:
Adamts6
Transcript:
ENSMUST00000224784.2
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
10
Exon/intron indexes:
2,3,4,5,6,7,8,9,10,11
Exon/intron offsets:
0,2715,12774,18268,19189,19791,52901,58311,72347,75207
Genomic length:
75344
Exon/intron sizes in nt:
3,78,36,51,69,21,28,41,00,00,00,00,00,000
Flanking exon/introns:
chr13:104424621-104430954|chr13:104506298-104512149
Splice length:
1788
Other database IDs:
circAtlas: mmu-Adamts6_0046
circAtlas: hsa-ADAMTS6_0060
Human Ortholog IDs:
Mature spliced Sequence:
GTTAAAAAGTGGCCACCATATTTAAGTGACCTATCACTCTGAGCTTGGCTAATGAAAAAATTTCATCATCGTTATTTTCTTCATTTTTGGATTGGAAAAATGAATCCAGACATAGAAGAAAGTGCAAGATGTTGGGGAAGAGTACTTGTTAAACAGTGGAGTATCTAACAACTTATTTACAAGAAGGATTAAAGAATTAAAATTGTTATGCTTCGATATTGGTATGCTATTGACTCTCTAGCTCATAGGTAGCCCTCCAAAAACATTCAGTTTTCCAAATTATGGAAATTTCGTGGAAAACGTTGACTTGGATTCTGAGCCTCATCATGGCCTCATCGGAATTTTATAGTGACCACAGACTTTCATATAGTTCTCAAGAGGAATTCCTGACTTATCTTGAACACTACCAGCTAACTATTCCAATAAGAGTTGACCAAAATGGAGCTTTTCTCAGCTTTACTGTGAAAAATGATAAACACTCAAGAAGAAGACGGAGTATGGACCTTCTTGATCCACAGCAGGCAGTGTCTAAATTATTTTTTAAACTTTCAGCCTATGGCAAGCACTTTCACCTAAACTTGACTCTCAATACAAATTTTGTGTCCAAACATTTTACAGTAGAGTATTGGGGGAAAGATGGACCCCAGTGGAAACATGATTTTTTAGACAACTGTCACTACACAGGATACTTGCAAGATCAACATAGTACAACTAAAGTGGCTTTAAGCAACTGTGTTGGATTGCATGGTATTATTGCTACAGAAGATGAAGAATATTTTATTGAGCCTCTAAAGAATACTACAGAGGATTCCAAACATTTTAGTTATGAAAATGGCCATCCTCATGTTATTTACAAAAAGTCTACTCTTCAGCAACAACATATCTATGATCATTCTCATTGTGGGGTTTCAGATCTCACAGGAAGTGGCAAACCTTGGTGGCTGAATAAGACATCATCTTTTCCTTCTTTACCACCAATTAATGACACACATATTCATCACAGAAAGAGAAGATCTGTGAGCACTGAGAGATTTGTGGAGACTTTAGTAGTGGCAGACAAAATGATGGTGGGCTACCATGGCCGTAAAGACATTGAACATTATATTTTAAGTGTGATGAATATTGTTGCCAAACTTTATCGTGACTCCAGTCTAGGAAACGTTGTGAATATTATAGTGGCTCGCTTAATTGTTCTCACTGAAGATCAGCCAAACTTGGAGATAAACCATCATGCAGACAAGTCCCTCGATAGCTTCTGTAAATGGCAGAAATCCATTCTCTCCCACCAAAGTGATGGAAACACCATTCCAGAAAATGGGATTGCCCACCACGATAATGCAGTTCTTATTACTAGATATGATATCTGCACGTATAAAAACAAGCCCTGTGGAACACTGGGCTTAGCCTCTGTGGCTGGAATGTGTGAGCCTGAAAGGAGCTGCAGCATTAATGAAGACATTGGCCTAGGCTCGGCTTTTACCATCGCACATGAGATTGGTCACAATTTTGGTATGAACCATGATGGAATTGGAAATTCTTGTGGGACGAAAGGTCATGAGGCAGCAAAACTTATGGCAGCTCATATTACTGCAAATACCAATCCCTTCTCCTGGTCTGCCTGCAGCAGAGACTACATCACCAGCTTTCTAGAATTTCTTAAACTCGGTGATTCAATAAGTGGTTCATGAATCGCCCAGAAGCCGTCCTGATTAAATAATAAAGAACCCATTTCCGTTAAAATGGACGTGTTTTGCCAGCTTCTGATGTTTTCCGAAGACGGCTTTGCAG
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAGAAGCCGTCCTGATTA
59.17
GCCAAGCTCAGAGTGATAGGT
59.52
145
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
CCCAGAAGCCGTCCTGATTA
59.17
AGCCAAGCTCAGAGTGATAGG
59.24
146
PCR template sequence:
ATCGCCCAGAAGCCGTCCTGATTAAATAATAAAGAACCCATTTCCGTTAAAATGGACGTGTTTTGCCAGCTTCTGATGTTTTCCGAAGACGGCTTTGCAGGTTAAAAAGTGGCCACCATATTTAAGTGACCTATCACTCTGAGCTTGGCTAATGAAAAAATTTCATCATCGTTATTTTCTTCATTTTTGGATTGGAAAAA
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
30
Interacting miRNAs (#binding sites)
mmu-miR-203-3p(2), mmu-miR-335-3p(2), mmu-miR-20b-5p(1), mmu-miR-27b-3p(1), mmu-miR-27a-3p(1), mmu-miR-106a-5p(1), mmu-miR-93-5p(1), mmu-miR-20a-5p(1), mmu-miR-17-5p(1), mmu-miR-199a-5p(1), mmu-miR-7b-5p(1), mmu-miR-7a-5p(1), mmu-miR-320-3p(1), mmu-miR-138-5p(1), mmu-miR-185-5p(1), mmu-miR-127-5p(1), mmu-miR-182-5p(1), mmu-miR-382-5p(1), mmu-miR-370-3p(1), mmu-miR-541-5p(1), mmu-miR-705(1), mmu-miR-325-3p(1), mmu-miR-384-3p(1), mmu-miR-1187(1), mmu-miR-190b-5p(1), mmu-miR-369-3p(1), mmu-miR-484(1), mmu-miR-452-3p(1), mmu-miR-188-3p(1), mmu-miR-7a-2-3p(1)
siRNAs for circular RNA silencing
Junction sequence
GACGGCTTTGCAGGTTAAAAAGTGGC
siRNA sets
TTTAACCTGCAAAGCCGTC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
NA
NA
NA
NA
NA
ORF sequence:
NA
Peptide sequence:
NA
IRESfinder result
IRESfinder score
0.791095919
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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