Data from: Cre-mediated, loxP independent sequential recombination of a tripartite transcriptional stop cassette allows for partial read-through transcription
Data files
Jun 08, 2020 version files 1.19 GB
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190507_AMB_AB2-22fwd.ab1
308.68 KB
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190507_AMB_AB2-22fwd.fasta
513 B
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190507_AMB_AB2-22rev.ab1
308.96 KB
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190507_AMB_AB2-22rev.fasta
518 B
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190507_AMB_F1-10fwd.ab1
308.86 KB
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190507_AMB_F1-10fwd.fasta
513 B
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190507_AMB_F1-10rev.ab1
321.30 KB
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190507_AMB_F1-10rev.fasta
1.02 KB
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190507_AMB_TK4fwd.ab1
319.79 KB
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190507_AMB_TK4fwd.fasta
1.03 KB
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190507_AMB_TK4rev.ab1
307.99 KB
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190507_AMB_TK4rev.fasta
152 B
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190807_AMB__1D-Ai14recombGel.png
1.02 MB
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190807_AMB__1D-Ai14recombGel.Tif
3.84 MB
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191018_AMB_1C-CHO_TurboLUT.tif
1.44 MB
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191018_AMB_1C-CHOmerge_crop.png
1.62 MB
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191018_AMB_1C-CHOmerge.tif
11.80 MB
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191111_AMB_1C-F1-10_iCreFACS.fcs
9.20 MB
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191111_AMB_1C-F1-10FACS.fcs
9.55 MB
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191111_AMB_1C-mixedFACS.fcs
9.20 MB
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191113_AMB_1B-F1-10-ERT2CreERT2-0.1uM.tif
2.88 MB
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191113_AMB_1B-F1-10-ERT2CreERT2-0uM.tif
2.88 MB
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191113_AMB_1B-F1-10-ERT2CreERT2-1uM.tif
2.88 MB
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191113_AMB_1B-F1-10-iCreHigh.tif
2.88 MB
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191113_AMB_1B-F1-10-iCreLow.tif
2.88 MB
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191113_AMB_1B-F1-10-iCreMedium.tif
2.88 MB
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191119_AMB_1B-TK4vsAB2-22_tube.png
767.66 KB
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191123_AMB_CHO-Sequencing-Subcl.docx
18.70 KB
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191123_AMB_F1-10CreERT2_Tmx-Subcl.docx
23.04 KB
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191123_AMB_FirstSequencing-noSubcl.docx
13.43 KB
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191127_AMB_1C-tdTqPCR.xlsx
14.09 KB
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191129_AMB_1D-F1-10_Ai14Gel.tif
3.84 MB
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200226_AMB_1C-inVivo-tdTConfocal_zStack.tif
217.17 MB
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200226_AMB_1D-inVivo-tdTConfocal_MaxZProj.tif
601.35 KB
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200228_AMB_1E-PrimaryCellsStrong_Turbo.tif
1.44 MB
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200228_AMB_1E-PrimaryCellsStrong.tif
17.69 MB
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200228_AMB_1E-PrimaryCellsWeak_Turbo.tif
1.44 MB
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200228_AMB_1E-PrimaryCellsWeak.tif
17.69 MB
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200313_AMB_1D-CHO_Ai14Gel.tif
1.92 MB
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200318_AMB_1E-AB2-22-iCre.tif
5.90 MB
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200318_AMB_1E-AB2-22.tif
5.90 MB
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200318_AMB_1G-tdTqPCR.xlsx
11.18 KB
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200319_AMB_1F-AB2-22-iCre_Ai14RecombGel.tif
3.84 MB
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200420_AMB_1D-F1-10_Ai14Gel.tif
772.42 KB
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201003_AMB_1A-FullKidney.tif
829.85 MB
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A4_500_3_M13.ab1
343.22 KB
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A4_500_3_M13.fasta
1.22 KB
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A4_500_4_M13_M13.ab1
340.76 KB
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A4_500_4_M13_M13.fasta
1.23 KB
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A4_500_5_M13_M13.ab1
339.62 KB
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A4_500_5_M13_M13.fasta
1.15 KB
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A4_500_6_M13_M13.ab1
343 KB
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A4_500_6_M13_M13.fasta
1.23 KB
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A4_500_7_M13_M13.ab1
343.90 KB
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A4_500_7_M13_M13.fasta
1.26 KB
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A4_800_1_M13.ab1
341.77 KB
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A4_800_1_M13.fasta
1.22 KB
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A4_800_2_M13_M13.ab1
342.88 KB
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A4_800_2_M13_M13.fasta
1.28 KB
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A4_800_3_M13_M13.ab1
343.95 KB
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A4_800_3_M13_M13.fasta
1.17 KB
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A4_800_4_M13_M13.ab1
340.77 KB
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A4_800_4_M13_M13.fasta
1.23 KB
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A4_800_5_M13_M13.ab1
336.44 KB
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A4_800_5_M13_M13.fasta
1.12 KB
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A4_800_6_M13_M13.ab1
336.97 KB
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A4_800_6_M13_M13.fasta
1.13 KB
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A4_800_7_M13_M13.ab1
343.31 KB
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A4_800_7_M13_M13.fasta
1.18 KB
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D2_200_1_M13.ab1
342.33 KB
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D2_200_1_M13.fasta
1.18 KB
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D2_200_2_M13_M13.ab1
346.82 KB
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D2_200_2_M13_M13.fasta
1.30 KB
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D2_200_3_M13_M13.ab1
337.03 KB
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D2_200_3_M13_M13.fasta
1.42 KB
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D2_200_4_M13_M13.ab1
342.33 KB
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D2_200_4_M13_M13.fasta
1.25 KB
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D2_500_1_M13.ab1
331.30 KB
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D2_500_1_M13.fasta
946 B
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D2_500_2_M13_M13.ab1
346.26 KB
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D2_500_2_M13_M13.fasta
1.21 KB
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D2_500_3_M13_M13.ab1
336.73 KB
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D2_500_3_M13_M13.fasta
1.11 KB
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D2_500_4_M13_M13.ab1
340.51 KB
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D2_500_4_M13_M13.fasta
1.23 KB
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D2_500_5_M13_M13.ab1
342.14 KB
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D2_500_5_M13_M13.fasta
1.14 KB
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pB_CHO1000_1_M13.ab1
316.16 KB
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pB_CHO1000_1_M13.fasta
1.22 KB
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pB_CHO200_1_M13.ab1
318.13 KB
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pB_CHO200_1_M13.fasta
1.19 KB
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pB_CHO500_2_M13_(1).ab1
310.63 KB
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pB_CHO500_2_M13.fasta
1.17 KB
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pB_CHO500_3_M13.ab1
311.56 KB
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pB_CHO500_3_M13.fasta
1.23 KB
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pB_CHO500_4_M13.ab1
315.04 KB
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pB_CHO500_4_M13.fasta
1.23 KB
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pB_CHO800_1_M13.ab1
310.56 KB
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pB_CHO800_1_M13.fasta
1.18 KB
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pB_CHO800_2_M13.ab1
316.65 KB
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pB_CHO800_2_M13.fasta
1.22 KB
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pB_CHO800_3_M13.ab1
312.79 KB
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pB_CHO800_3_M13.fasta
1.23 KB
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pB_CHO800_4_M13.ab1
314.01 KB
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pB_CHO800_4_M13.fasta
1.20 KB
Jun 10, 2020 version files 1.19 GB
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190507_AMB_AB2-22fwd.ab1
308.68 KB
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190507_AMB_AB2-22fwd.fasta
513 B
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190507_AMB_AB2-22rev.ab1
308.96 KB
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190507_AMB_AB2-22rev.fasta
518 B
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190507_AMB_F1-10fwd.ab1
308.86 KB
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190507_AMB_F1-10fwd.fasta
513 B
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190507_AMB_F1-10rev.ab1
321.30 KB
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190507_AMB_F1-10rev.fasta
1.02 KB
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190507_AMB_TK4fwd.ab1
319.79 KB
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190507_AMB_TK4fwd.fasta
1.03 KB
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190507_AMB_TK4rev.ab1
307.99 KB
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190507_AMB_TK4rev.fasta
152 B
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190807_AMB__1D-Ai14recombGel.png
1.02 MB
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190807_AMB__1D-Ai14recombGel.Tif
3.84 MB
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191018_AMB_1C-CHO_TurboLUT.tif
1.44 MB
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191018_AMB_1C-CHOmerge_crop.png
1.62 MB
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191018_AMB_1C-CHOmerge.tif
11.80 MB
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191111_AMB_1C-F1-10_iCreFACS.fcs
9.20 MB
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191111_AMB_1C-F1-10FACS.fcs
9.55 MB
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191111_AMB_1C-mixedFACS.fcs
9.20 MB
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191113_AMB_1B-F1-10-ERT2CreERT2-0.1uM.tif
2.88 MB
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191113_AMB_1B-F1-10-ERT2CreERT2-0uM.tif
2.88 MB
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191113_AMB_1B-F1-10-ERT2CreERT2-1uM.tif
2.88 MB
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191113_AMB_1B-F1-10-iCreHigh.tif
2.88 MB
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191113_AMB_1B-F1-10-iCreLow.tif
2.88 MB
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191113_AMB_1B-F1-10-iCreMedium.tif
2.88 MB
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191119_AMB_1B-TK4vsAB2-22_tube.png
767.66 KB
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191123_AMB_CHO-Sequencing-Subcl.docx
18.70 KB
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191123_AMB_F1-10CreERT2_Tmx-Subcl.docx
23.04 KB
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191123_AMB_FirstSequencing-noSubcl.docx
13.43 KB
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191127_AMB_1C-tdTqPCR.xlsx
14.09 KB
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191129_AMB_1D-F1-10_Ai14Gel.tif
3.84 MB
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200226_AMB_1C-inVivo-tdTConfocal_zStack.tif
217.17 MB
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200226_AMB_1D-inVivo-tdTConfocal_MaxZProj.tif
601.35 KB
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200228_AMB_1E-PrimaryCellsStrong_Turbo.tif
1.44 MB
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200228_AMB_1E-PrimaryCellsStrong.tif
17.69 MB
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200228_AMB_1E-PrimaryCellsWeak_Turbo.tif
1.44 MB
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200228_AMB_1E-PrimaryCellsWeak.tif
17.69 MB
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200313_AMB_1D-CHO_Ai14Gel.tif
1.92 MB
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200318_AMB_1E-AB2-22-iCre.tif
5.90 MB
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200318_AMB_1E-AB2-22.tif
5.90 MB
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200318_AMB_1G-tdTqPCR.xlsx
11.18 KB
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200319_AMB_1F-AB2-22-iCre_Ai14RecombGel.tif
3.84 MB
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200420_AMB_1D-F1-10_Ai14Gel.tif
772.42 KB
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201003_AMB_1A-FullKidney.tif
829.85 MB
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2020-BBAGRM-Bapst_readme.txt
14.38 KB
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A4_500_3_M13.ab1
343.22 KB
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A4_500_3_M13.fasta
1.22 KB
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A4_500_4_M13_M13.ab1
340.76 KB
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A4_500_4_M13_M13.fasta
1.23 KB
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A4_500_5_M13_M13.ab1
339.62 KB
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A4_500_5_M13_M13.fasta
1.15 KB
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A4_500_6_M13_M13.ab1
343 KB
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A4_500_6_M13_M13.fasta
1.23 KB
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A4_500_7_M13_M13.ab1
343.90 KB
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A4_500_7_M13_M13.fasta
1.26 KB
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A4_800_1_M13.ab1
341.77 KB
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A4_800_1_M13.fasta
1.22 KB
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A4_800_2_M13_M13.ab1
342.88 KB
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A4_800_2_M13_M13.fasta
1.28 KB
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A4_800_3_M13_M13.ab1
343.95 KB
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A4_800_3_M13_M13.fasta
1.17 KB
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A4_800_4_M13_M13.ab1
340.77 KB
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A4_800_4_M13_M13.fasta
1.23 KB
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A4_800_5_M13_M13.ab1
336.44 KB
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A4_800_5_M13_M13.fasta
1.12 KB
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A4_800_6_M13_M13.ab1
336.97 KB
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A4_800_6_M13_M13.fasta
1.13 KB
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A4_800_7_M13_M13.ab1
343.31 KB
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A4_800_7_M13_M13.fasta
1.18 KB
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D2_200_1_M13.ab1
342.33 KB
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D2_200_1_M13.fasta
1.18 KB
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D2_200_2_M13_M13.ab1
346.82 KB
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D2_200_2_M13_M13.fasta
1.30 KB
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D2_200_3_M13_M13.ab1
337.03 KB
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D2_200_3_M13_M13.fasta
1.42 KB
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D2_200_4_M13_M13.ab1
342.33 KB
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D2_200_4_M13_M13.fasta
1.25 KB
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D2_500_1_M13.ab1
331.30 KB
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D2_500_1_M13.fasta
946 B
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D2_500_2_M13_M13.ab1
346.26 KB
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D2_500_2_M13_M13.fasta
1.21 KB
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D2_500_3_M13_M13.ab1
336.73 KB
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D2_500_3_M13_M13.fasta
1.11 KB
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D2_500_4_M13_M13.ab1
340.51 KB
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D2_500_4_M13_M13.fasta
1.23 KB
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D2_500_5_M13_M13.ab1
342.14 KB
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D2_500_5_M13_M13.fasta
1.14 KB
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pB_CHO1000_1_M13.ab1
316.16 KB
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pB_CHO1000_1_M13.fasta
1.22 KB
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pB_CHO200_1_M13.ab1
318.13 KB
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pB_CHO200_1_M13.fasta
1.19 KB
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pB_CHO500_2_M13_(1).ab1
310.63 KB
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pB_CHO500_2_M13.fasta
1.17 KB
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pB_CHO500_3_M13.ab1
311.56 KB
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pB_CHO500_3_M13.fasta
1.23 KB
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pB_CHO500_4_M13.ab1
315.04 KB
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pB_CHO500_4_M13.fasta
1.23 KB
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pB_CHO800_1_M13.ab1
310.56 KB
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pB_CHO800_1_M13.fasta
1.18 KB
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pB_CHO800_2_M13.ab1
316.65 KB
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pB_CHO800_2_M13.fasta
1.22 KB
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pB_CHO800_3_M13.ab1
312.79 KB
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pB_CHO800_3_M13.fasta
1.23 KB
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pB_CHO800_4_M13.ab1
314.01 KB
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pB_CHO800_4_M13.fasta
1.20 KB
Abstract
One of the widely used applications of the popular Cre-loxP method for targeted recombination is the permanent activation of marker genes, such as reporter genes or antibiotic resistance genes, by excision of a preceding transcriptional stop signal. The STOP cassette consists of three identical SV40-derived poly(A) signal repeats and is flanked by two loxP sites. We found that in addition to complete loxP-mediated recombination, limiting levels of the Cre recombinase also cause incomplete recombination of the STOP cassette. Partial recombination leads to the loss of only one or two of the three identical poly(A) repeats with recombination breakpoints always precisely matching the end/start of each poly(A) signal repeat without any relevant similarity to the canonical or known cryptic loxP sequences, suggesting that this type of Cre-mediated recombination is loxP-independent. Incomplete deletion of the STOP cassette results in partial read-through transcription, explaining at least some of the variability often observed in marker gene expression from an otherwise identical locus.