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Table 1 Skipped exon (SE) evidence of ABCB1 transcripts detected in transcriptomes from KB-C2-k.o.cdk6, KB-C2-k.o.cdk4, KB-C2-110α, KB-C2-110β as compared with KB-C2 transcriptome

From: CDK6-PI3K signaling axis is an efficient target for attenuating ABCB1/P-gp mediated multi-drug resistance (MDR) in cancer cells

(I) KB-C2-k.o.cdk6 vs KB-C2
AS ID Gene ID Gene name Novel AS Chr Diff significant P Value Junction Count Only Exon Start (0 base) Exon End Upstream ES Upstream EE Downstream ES Downstream EE
SE_46658 ENSG00000085563 ABCB1 yes 7 no 1 87516508 87516665 87515227 87515428 87519325 87519466
SE_46659 ENSG00000085563 ABCB1 yes 7 no 1 87536457 87536541 87531293 87531497 87539267 87539345
SE_46657 ENSG00000085563 ABCB1 yes 7 no 1 87505896 87506043 87502690 87504449 87509274 87509481
SE_46669 ENSG00000085563 ABCB1 no 7 no 0.9038720596 87602959 87603140 87600812 87601078 87713160 87713295
SE_46668 ENSG00000085563 ABCB1 yes 7 yes 7.74577644824E-006 87601966 87603140 87600754 87601078 87605645 87605775
SE_46663 ENSG00000085563 ABCB1 yes 7 no 1 87550724 87550838 87550467 87550578 87553760 87553932
SE_46662 ENSG00000085563 ABCB1 yes 7 no 1 87550170 87550296 87549850 87550054 87550467 87550578
SE_46661 ENSG00000085563 ABCB1 yes 7 no 1 87549347 87549518 87545862 87546024 87549850 87550054
SE_46660 ENSG00000085563 ABCB1 yes 7 no 1 87541356 87541464 87539267 87539345 87544128 87544275
SE_46667 ENSG00000085563 ABCB1 yes 7 no 1 87595765 87595814 87585511 87585680 87600116 87600190
SE_46666 ENSG00000085563 ABCB1 yes 7 no 1 87595765 87595814 87505896 87506043 87600116 87600190
SE_46665 ENSG00000085563 ABCB1 yes 7 no 0.0682123258 87566784 87566976 87566069 87566241 87570171 87570223
SE_46664 ENSG00000085563 ABCB1 yes 7 no 0.4481719285 87566069 87566241 87561262 87561387 87570171 87570223
SE_46670 ENSG00000085563 ABCB1 no 7 no 0.7879487815 87605645 87605775 87600754 87601078 87713160 87713294
(II) KB-C2-k.o.cdk4 vs KB-C2
AS ID Gene ID Gene name Novel AS Chr Diff significant P Value Junction Count Only Exon Start (0 base) Exon End Upstream ES Upstream EE Downstream ES Downstream EE
SE_47404 ENSG00000085563 ABCB1 yes 7 no 0.1867192198 87566784 87566976 87566069 87566241 87570171 87570223
SE_47405 ENSG00000085563 ABCB1 yes 7 no 1 87595765 87595814 87585511 87585680 87600116 87600190
SE_47406 ENSG00000085563 ABCB1 yes 7 no 0.4757658641 87601966 87603140 87600754 87601078 87605645 87605775
SE_47407 ENSG00000085563 ABCB1 no 7 no 0.1348013017 87602959 87603140 87600812 87601078 87713160 87713295
SE_47400 ENSG00000085563 ABCB1 yes 7 no 1 87549347 87549518 87545862 87546024 87549850 87550054
SE_47401 ENSG00000085563 ABCB1 yes 7 no 1 87550170 87550296 87549850 87550054 87550467 87550578
SE_47402 ENSG00000085563 ABCB1 yes 7 no 1 87550724 87550838 87550467 87550578 87553760 87553932
SE_47403 ENSG00000085563 ABCB1 yes 7 no 0.3242107276 87566069 87566241 87561262 87561387 87570171 87570223
SE_47408 ENSG00000085563 ABCB1 no 7 no 0.0695066227 87605645 87605775 87600754 87601078 87713160 87713294
SE_47409 ENSG00000085563 ABCB1 no 7 yes 2.4192194914E-009 87605645 87605775 87601966 87603140 87713160 87713294
SE_47397 ENSG00000085563 ABCB1 yes 7 no 1 87519325 87519466 87516508 87516665 87520775 87520876
SE_47398 ENSG00000085563 ABCB1 yes 7 no 1 87536457 87536541 87531293 87531497 87539267 87539345
SE_47399 ENSG00000085563 ABCB1 yes 7 no 1 87541356 87541464 87539267 87539345 87544128 87544275
(III) KB-C2-k.o.110α vs KB-C2
AS ID Gene ID Gene name Novel AS Chr Diff significant P Value Junction Count Only Exon Start (0 base) Exon End Upstream ES Upstream EE Downstream ES Downstream EE
SE_50129 ENSG00000085563 ABCB1 no 7 no 0.1120059639 87605645 87605775 87601966 87603140 87713160 87715224
SE_50128 ENSG00000085563 ABCB1 no 7 yes 2.83848985472E-006 87605645 87605775 87600754 87601078 87713160 87715224
SE_50127 ENSG00000085563 ABCB1 no 7 yes 0 87602959 87603140 87600754 87601078 87713160 87713295
SE_50125 ENSG00000085563 ABCB1 no 7 no 0.0641212769 87601272 87601371 87600754 87601078 87602959 87603140
SE_50123 ENSG00000085563 ABCB1 yes 7 no 1 87595765 87595814 87585511 87585680 87600116 87600190
SE_50122 ENSG00000085563 ABCB1 yes 7 no 1 87570171 87570223 87561262 87561387 87585511 87585680
SE_50121 ENSG00000085563 ABCB1 yes 7 no 0.0842138339 87566784 87566976 87566069 87566241 87570171 87570223
SE_50112 ENSG00000085563 ABCB1 yes 7 no 1 87519325 87519466 87516508 87516665 87520775 87520876
SE_50116 ENSG00000085563 ABCB1 yes 7 no 1 87550170 87550296 87549850 87550054 87550467 87550578
SE_50117 ENSG00000085563 ABCB1 yes 7 no 1 87550724 87550838 87550467 87550578 87553760 87553932
SE_50114 ENSG00000085563 ABCB1 yes 7 no 0.5111213437 87541356 87541464 87539267 87539345 87544128 87544275
SE_50126 ENSG00000085563 ABCB1 yes 7 no 0.2905363226 87601966 87603140 87600754 87601078 87605645 87605775
SE_50124 ENSG00000085563 ABCB1 yes 7 no 0.2672547758 87601272 87601371 87600754 87601078 87601966 87603140
SE_50120 ENSG00000085563 ABCB1 yes 7 no 0.5376920457 87566784 87566976 87561262 87561387 87570171 87570223
SE_50113 ENSG00000085563 ABCB1 yes 7 no 1 87536457 87536541 87531293 87531497 87539267 87539345
SE_50115 ENSG00000085563 ABCB1 yes 7 no 1 87549347 87549518 87545862 87546024 87549850 87550054
SE_50118 ENSG00000085563 ABCB1 yes 7 no 1 87566069 87566241 87561262 87561387 87566784 87566976
SE_50119 ENSG00000085563 ABCB1 yes 7 no 0.4481965282 87566069 87566241 87561262 87561387 87570171 87570223
(V) KB-C2-k.o.110β vs KB-C2
AS ID Gene ID Gene name Novel AS Chr Diff significant P Value Junction Count Only Exon Start (0 base) Exon End Upstream ES Upstream EE Downstream ES Downstream EE
SE_49198 ENSG00000085563 ABCB1 yes 7 no 0.4057523949 87601272 87601371 87600754 87601078 87601966 87603140
SE_49199 ENSG00000085563 ABCB1 no 7 yes 0.0006903622 87601272 87601371 87600754 87601078 87602959 87603140
SE_49190 ENSG00000085563 ABCB1 yes 7 no 1 87550170 87550296 87549850 87550054 87550467 87550578
SE_49191 ENSG00000085563 ABCB1 yes 7 no 0.365137306 87550467 87550578 87549850 87550054 87553760 87553932
SE_49192 ENSG00000085563 ABCB1 yes 7 no 1 87550724 87550838 87550467 87550578 87553760 87553932
SE_49193 ENSG00000085563 ABCB1 yes 7 no 1 87566069 87566241 87561262 87561387 87566784 87566976
SE_49194 ENSG00000085563 ABCB1 yes 7 no 0.448132556 87566069 87566241 87561262 87561387 87570171 87570223
SE_49195 ENSG00000085563 ABCB1 yes 7 no 0.5487589032 87566784 87566976 87561262 87561387 87570171 87570223
SE_49196 ENSG00000085563 ABCB1 no 7 no 0.9285527169 87566784 87566976 87566069 87566241 87570171 87570223
SE_49197 ENSG00000085563 ABCB1 yes 7 no 1 87595765 87595814 87585511 87585680 87600116 87600190
SE_49189 ENSG00000085563 ABCB1 yes 7 no 1 87549347 87549518 87545862 87546024 87549850 87550054
SE_49188 ENSG00000085563 ABCB1 yes 7 no 1 87541356 87541464 87539267 87539345 87544128 87544275
SE_49187 ENSG00000085563 ABCB1 yes 7 no 1 87536457 87536541 87531293 87531497 87539267 87539345
SE_49186 ENSG00000085563 ABCB1 yes 7 no 1 87516508 87516665 87515227 87515428 87519325 87519466
SE_49200 ENSG00000085563 ABCB1 no 7 yes 1.1990408666E-014 87601272 87601371 87600754 87601078 87713160 87715224
SE_49201 ENSG00000085563 ABCB1 yes 7 yes 0.000649673 87601966 87603140 87600754 87601078 87605645 87605775
SE_49202 ENSG00000085563 ABCB1 no 7 yes 0 87602959 87603140 87600754 87601078 87713160 87713295
SE_49203 ENSG00000085563 ABCB1 yes 7 yes 0.0067345237 87602959 87603140 87601272 87601371 87713160 87713295
SE_49204 ENSG00000085563 ABCB1 no 7 yes 0 87605645 87605775 87600754 87601078 87713160 87715224
SE_49205 ENSG00000085563 ABCB1 no 7 no 0.0538934718 87605645 87605775 87601966 87603140 87713160 87715224
(I) KB-C2-k.o.cdk6 vs KB-C2
IJC KB-C2 SJC KB-C2 IJC KB-C2-k.o.cdk6 SJC KB-C2-k.o.cdk6 Inc Form Len Skip Form Len Average Inc Level1 (average PSI 1) Average Inc Level2 (average PSI 2) Increase Inclusion KB-C2 (ΔPSI>0) Increase Exclusion KB-C2 (ΔPSI<0) Increase Inclusion KB-C2-k.o.cdk6 (ΔPSI<0) Increase Exclusion KB-C2-k.o.cdk6 (ΔPSI>0)
7907 9 5933 0 298 149 0.998 1 no yes yes no
2821 1 2975 0 232 149 0.999 1 no yes yes no
12259 1 7047 0 295 149 1 1 no_difference no_difference no_difference no_difference
11 35 38 129 298 149 0.136 0.128 yes no no yes
0 2 50 1 298 149 0 0.962 no yes yes no
2116 2 4377 3 262 149 0.998 0.999 no yes yes no
2845 2 4885 4 274 149 0.999 0.998 yes no no yes
3787 9 5847 1 298 149 0.995 1 no yes yes no
2626 0 3200 14 256 149 1 0.993 yes no no yes
1170 0 3565 27 197 149 1 0.99 yes no no yes
349 1 931 0 197 149 0.996 1 no yes yes no
1491 45 4298 83 298 149 0.943 0.963 no yes yes no
857 0 1995 14 298 149 1 0.986 yes no no yes
2 35 4 129 278 149 0.03 0.016 yes no no yes
(II) KB-C2-k.o.cdk4 vs KB-C2
IJC KB-C2 SJC KB-C2 IJC KB-C2-k.o.cdk4 SJC KB-C2-k.o.cdk4 Inc Form Len Skip Form Len Average Inc Level1 (average PSI 1) Average Inc Level2 (average PSI 2) Increase Inclusion KB-C2 (ΔPSI>0) Increase Exclusion KB-C2 (ΔPSI<0) Increase Inclusion KB-C2-k.o.cdk4 (ΔPSI<0) Increase Exclusion KB-C2-k.o.cdk4 (ΔPSI>0)
3892 56 4300 83 341 149 0.968 0.958 yes no no yes
2933 7 3565 27 198 149 0.997 0.99 yes no no yes
54 0 50 1 1323 149 1 0.849 yes no no yes
46 101 38 129 330 149 0.171 0.117 yes no no yes
5497 14 5847 1 320 149 0.995 1 no yes yes no
5076 4 4885 4 275 149 0.999 0.998 yes no no yes
4228 0 4377 3 263 149 1 0.999 yes no no yes
1914 1 1995 14 321 149 0.999 0.985 yes no no yes
9 101 4 129 279 149 0.045 0.016 yes no no yes
20 0 3 11 279 149 1 0.127 yes no no yes
5188 1 5459 0 290 149 1 1 no_difference no_difference no_difference no_difference
3032 4 2975 0 233 149 0.998 1 no yes yes no
3431 0 3200 14 257 149 1 0.993 yes no no yes
(III) KB-C2-k.o.110α vs KB-C2
IJC KB-C2 SJC KB-C2 IJC KB-C2-k.o.110α SJC KB-C2-k.o.110α Inc Form Len Skip Form Len Average Inc Level1 (average PSI 1) Average Inc Level2 (average PSI 2) Increase Inclusion KB-C2 (ΔPSI>0) Increase Exclusion KB-C2 (ΔPSI<0) Increase Inclusion KB-C2-k.o.110α (ΔPSI<0) Increase Exclusion KB-C2-k.o.110α (ΔPSI>0)
11 14 3 11 278 149 0.296 0.128 yes no no yes
3 0 4 129 278 149 1 0.016 yes no no yes
30 0 38 129 298 149 1 0.128 yes no no yes
38 16 30 27 247 149 0.589 0.401 yes no no yes
4622 7 3565 27 197 149 0.998 0.99 yes no no yes
818 1 701 0 200 149 0.998 1 no yes yes no
5347 145 4298 83 298 149 0.949 0.963 no yes yes no
7533 7 5459 0 289 149 0.998 1 no yes yes no
6308 5 4885 4 274 149 0.999 0.998 yes no no yes
5327 2 4377 3 262 149 0.999 0.999 no_difference no_difference no_difference no_difference
4489 32 3200 14 256 149 0.988 0.993 no yes yes no
58 0 50 1 298 149 1 0.962 yes no no yes
66 50 47 50 247 149 0.443 0.362 yes no no yes
2856 2 2099 14 298 149 0.999 0.987 yes no no yes
4051 26 2975 0 232 149 0.99 1 no yes yes no
8098 9 5847 1 298 149 0.998 1 no yes yes no
4749 1 4111 0 298 149 1 1 no_difference no_difference no_difference no_difference
2402 2 1995 14 298 149 0.998 0.986 yes no no yes
(V) KB-C2-k.o.110β vs KB-C2
IJC KB-C2 SJC KB-C2 IJC KB-C2-k.o.110β SJC KB-C2-k.o.110β Inc Form Len Skip Form Len Average Inc Level1 (average PSI 1) Average Inc Level2 (average PSI 2) Increase Inclusion KB-C2 (ΔPSI>0) Increase Exclusion KB-C2 (ΔPSI<0) Increase Inclusion KB-C2-k.o.110β (ΔPSI<0) Increase Exclusion KB-C2-k.o.110β (ΔPSI>0)
21 30 47 50 247 149 0.297 0.362 no yes yes no
15 53 30 27 247 149 0.146 0.401 no yes yes no
6090 5 4885 4 274 149 0.998 0.998 no_difference no_difference no_difference no_difference
12 1 5 0 259 149 0.873 1 no yes yes no
5428 7 4377 3 262 149 0.998 0.999 no yes yes no
4885 1 4111 0 298 149 1 1 no_difference no_difference no_difference no_difference
2345 0 1995 14 298 149 1 0.986 yes no no yes
2793 0 2099 14 298 149 1 0.987 yes no no yes
5439 107 4298 83 298 149 0.962 0.963 no yes yes no
4078 0 3565 27 197 149 1 0.99 yes no no yes
7421 5 5847 1 298 149 0.999 1 no yes yes no
4110 0 3200 14 256 149 1 0.993 yes no no yes
3805 9 2975 0 232 149 0.996 1 no yes yes no
8034 1 5933 0 298 149 1 1 no_difference no_difference no_difference no_difference
19 0 28 129 247 149 1 0.116 yes no no yes
53 12 50 1 298 149 0.688 0.962 no yes yes no
109 0 38 129 298 149 1 0.128 yes no no yes
58 6 15 0 298 149 0.829 1 no yes yes no
33 0 4 129 278 149 1 0.016 yes no no yes
44 56 3 11 278 149 0.296 0.128 yes no no yes