ENSG00000143952

1 Isoform Switch

Summary Plot

Only the isoforms with fraction > 5% are shown below.

  • Note:

    • About the Coding Potential: Please check the spreadsheet in the “Results” tag to confirm the coding potential. The above figure only show the predicted coding potential. The “gene_biotype” in the result spreadsheet is from the database record. Therefore, if you find conflicts between “gene_biotype” and “codingPotential”, please trust the “gene_biotype”.

    • Notes on IDR and IDR_w_binding: As the prediction of Intrinsically Disordered Regions (IDR) and Intrinsically Disordered Binding Regions (IDBR) are done by two different tools we require two things to annotate the Intrinsically Disordered Binding Regions (IDBR). Firstly the IDBR (predicted by ANCHOR2) must be a region of at least 15 amino acids (after the smoothing). Secondly the fraction of the IDBR which overlaps the IDR predictions (done by IUPred3, again after smoothing) must be at least 80%. When that is the case the IDR type will be annotated as “IDR_w_binding_region” instead of just “IDR”. The current default parameters have not been rigorously tested and should be considered experimental.

    • For the function of any other domain, please Click HERE to search it through Pfam database.

Results

isoform_id gene_id condition_1 condition_2 gene_name gene_biotype iso_biotype gene_overall_mean gene_value_1 gene_value_2 gene_stderr_1 gene_stderr_2 gene_log2_fold_change iso_overall_mean iso_value_1 iso_value_2 iso_stderr_1 iso_stderr_2 iso_log2_fold_change IF_overall IF1 IF2 dIF isoform_switch_q_value gene_switch_q_value PTC codingPotential
ENST00000272322 ENSG00000143952 No_inf pgKDN_inf VPS54 protein_coding protein_coding 6.595793 6.891565 6.619669 0.1900479 0.5168026 -0.05798675 1.0051656 0.2617954 0.7759755 0.2617954 0.7759755 1.5319631 0.16305000 0.038650 0.099550 0.060900 1.000000e+00 1.85357e-06 FALSE TRUE
ENST00000354504 ENSG00000143952 No_inf pgKDN_inf VPS54 protein_coding protein_coding 6.595793 6.891565 6.619669 0.1900479 0.5168026 -0.05798675 0.2151709 0.0000000 0.4248291 0.0000000 0.4248291 5.4423766 0.03370833 0.000000 0.060800 0.060800 8.360992e-01 1.85357e-06 FALSE TRUE
ENST00000409558 ENSG00000143952 No_inf pgKDN_inf VPS54 protein_coding protein_coding 6.595793 6.891565 6.619669 0.1900479 0.5168026 -0.05798675 3.1672257 3.1431612 4.5503728 0.5893392 0.8206601 0.5323529 0.48199167 0.451575 0.723150 0.271575 5.288773e-01 1.85357e-06 FALSE TRUE
ENST00000416400 ENSG00000143952 No_inf pgKDN_inf VPS54 protein_coding nonsense_mediated_decay 6.595793 6.891565 6.619669 0.1900479 0.5168026 -0.05798675 1.1143358 0.4266359 0.8684910 0.4266359 0.5221156 1.0085969 0.16291667 0.063000 0.116525 0.053525 8.195332e-01 1.85357e-06 TRUE TRUE
MSTRG.16361.3 ENSG00000143952 No_inf pgKDN_inf VPS54 protein_coding   6.595793 6.891565 6.619669 0.1900479 0.5168026 -0.05798675 1.0938951 3.0599722 0.0000000 0.3538592 0.0000000 -8.2620818 0.15834167 0.446775 0.000000 -0.446775 1.853570e-06 1.85357e-06 TRUE TRUE
  • Note:
    • The comparisons made can be identified as “from ‘condition_1’ to ‘condition_2’”, meaning ‘condition_1’ is considered the ground state and ‘condition_2’ the changed state. This also means that a positive dIF value indicates that the isoform usage is increased in ‘condition_2’ compared to ‘condition_1’. Since the ‘isoformFeatures’ entry is the most relevant part of the switchAnalyzeRlist object, the most-used standard methods have also been implemented to work directly on isoformFeatures.

Help

Please Click HERE to learn more details about the results of IsoformSwitchAnalyzeR.

2 Differential Exon Usage

Counts

All exons whithin this gene region are shown and numbering below.

Expression

All exons whithin this gene region are shown and numbering below.

Splicing

All exons whithin this gene region are shown and numbering below.

Transcripts

All isoforms whithin this gene region are shown below.

Results

groupID featureID exonBaseMean dispersion pvalue padj seqnames start end width strand pgKDN.inf No.inf log2fold_No.inf_pgKDN.inf
ENSG00000143952 E001 0.1272623 0.0126307498 0.5390676217   2 63892146 63892149 4 - 0.000 0.094 8.938
ENSG00000143952 E002 0.4806001 0.0154651091 0.3177542975   2 63892150 63892173 24 - 0.241 0.094 -1.618
ENSG00000143952 E003 16.8593509 0.0016670020 0.0001110588 0.002594129 2 63892174 63892900 727 - 1.093 1.358 0.935
ENSG00000143952 E004 6.9759311 0.0024314363 0.8768523104 0.958242496 2 63892901 63893071 171 - 0.913 0.891 -0.084
ENSG00000143952 E005 25.4457537 0.0009175302 0.0733442852 0.275374221 2 63893072 63893535 464 - 1.372 1.463 0.317
ENSG00000143952 E006 5.8424402 0.0027366444 0.2419256966 0.531555564 2 63897496 63897590 95 - 0.899 0.766 -0.519
ENSG00000143952 E007 4.2670902 0.0038198852 0.3897408616 0.675326381 2 63899474 63899543 70 - 0.775 0.666 -0.448
ENSG00000143952 E008 3.4131337 0.0043296916 0.4441196730 0.718795776 2 63899544 63899581 38 - 0.696 0.591 -0.448
ENSG00000143952 E009 6.8952806 0.0021370576 0.2893057905 0.582943668 2 63912345 63912425 81 - 0.842 0.942 0.382
ENSG00000143952 E010 9.5556120 0.0015538434 0.8370102849 0.941568605 2 63912540 63912661 122 - 1.017 1.029 0.041
ENSG00000143952 E011 6.7086354 0.0207458991 0.5191766472 0.773922039 2 63913223 63913310 88 - 0.926 0.848 -0.296
ENSG00000143952 E012 0.1170040 0.0119358957 0.5371090209   2 63913825 63913925 101 - 0.096 0.000 -12.321
ENSG00000143952 E013 6.7580725 0.0023542837 0.5081694955 0.766496450 2 63914182 63914287 106 - 0.857 0.917 0.230
ENSG00000143952 E014 5.7998381 0.0025933078 0.1930527950 0.472857102 2 63916900 63916963 64 - 0.756 0.891 0.526
ENSG00000143952 E015 6.7327145 0.0120711465 0.8645059763 0.953132021 2 63919883 63919995 113 - 0.899 0.877 -0.086
ENSG00000143952 E016 7.4655041 0.0019850209 0.8813735099 0.960100658 2 63920446 63920627 182 - 0.938 0.917 -0.080
ENSG00000143952 E017 5.7648749 0.0025686494 0.8973978451 0.966130814 2 63921206 63921335 130 - 0.826 0.833 0.028
ENSG00000143952 E018 11.5203952 0.0011732064 0.8521100618 0.947746438 2 63933673 63934013 341 - 1.093 1.101 0.028
ENSG00000143952 E019 5.9472690 0.0118733064 0.0709495426 0.269803186 2 63942465 63942561 97 - 0.938 0.729 -0.818
ENSG00000143952 E020 4.9980377 0.1175260973 0.5263407859 0.778734557 2 63944600 63944655 56 - 0.826 0.729 -0.388
ENSG00000143952 E021 5.0018129 0.0271680231 0.6406556340 0.847471818 2 63947383 63947490 108 - 0.809 0.748 -0.245
ENSG00000143952 E022 5.8988785 0.0031187359 0.3996912552 0.683428963 2 63949037 63949163 127 - 0.792 0.877 0.329
ENSG00000143952 E023 12.0475882 0.0082665227 0.1020299351 0.333730519 2 63962058 63962443 386 - 1.186 1.038 -0.534
ENSG00000143952 E024 4.4016200 0.0188633031 0.7695331232 0.910954533 2 63965835 63965966 132 - 0.756 0.709 -0.194
ENSG00000143952 E025 2.0950139 0.0073839379 0.4785536906 0.744498914 2 63968957 63968991 35 - 0.437 0.534 0.481
ENSG00000143952 E026 2.4225675 0.0073526366 0.1766189218 0.450881097 2 63972166 63972244 79 - 0.625 0.430 -0.926
ENSG00000143952 E027 0.0000000       2 63974986 63975602 617 -      
ENSG00000143952 E028 5.3491822 0.0395205264 0.1830524196 0.459727034 2 63981646 63981851 206 - 0.886 0.709 -0.701
ENSG00000143952 E029 0.4705225 0.6879758928 0.3072838729   2 63981852 63981887 36 - 0.299 0.000 -13.530
ENSG00000143952 E030 3.9691456 0.0668701793 0.0152313927 0.106272954 2 63983864 63984019 156 - 0.857 0.468 -1.678
ENSG00000143952 E031 3.5656125 0.0320772640 0.6093617274 0.830061829 2 64018938 64019428 491 - 0.625 0.688 0.266

Help

Please Click HERE to learn more details about the results from DEXseq.