ENSG00000228409

1 Isoform Switch

Summary Plot

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

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
ENST00000442266 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.2434100 0.00000000 0.00000000 0.00000000 0.00000000 0.0000000 0.05115417 0.00000000 0.00000000 0.00000000   0.0001321706   FALSE
ENST00000686363 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.3853771 0.21107046 1.07321561 0.21107046 0.18665989 2.2927422 0.06339167 0.06736667 0.15390000 0.08653333 0.3116882776 0.0001321706   FALSE
ENST00000686689 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.4901032 0.20298409 1.23498935 0.11702150 0.17566189 2.5473159 0.09150000 0.07156667 0.18060000 0.10903333 0.3141778283 0.0001321706   FALSE
ENST00000687809 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.6763764 0.16794613 1.01974401 0.16794613 0.30907316 2.5327733 0.12207083 0.05360000 0.14640000 0.09280000 0.3057959423 0.0001321706   FALSE
ENST00000688478 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.3168917 0.00000000 0.89154781 0.00000000 0.26676658 6.4943321 0.04950417 0.00000000 0.13113333 0.13113333 0.0001321706 0.0001321706   FALSE
ENST00000688735 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.5037653 0.35872479 0.75773976 0.35872479 0.75773976 1.0580729 0.09690000 0.13250000 0.12140000 -0.01110000 0.9419831960 0.0001321706   FALSE
ENST00000688944 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.8246883 0.87296431 0.35514342 0.09420215 0.35514342 -1.2738919 0.18092917 0.29746667 0.05030000 -0.24716667 0.0723862922 0.0001321706   FALSE
ENST00000689814 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.1498313 0.00000000 0.49907987 0.00000000 0.49907987 5.6698201 0.02180833 0.00000000 0.06776667 0.06776667 0.9532615786 0.0001321706   FALSE
ENST00000690636 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.2074129 0.30616511 0.07866506 0.06227339 0.03937816 -1.8342405 0.05516667 0.10400000 0.01186667 -0.09213333 0.0006823890 0.0001321706   FALSE
ENST00000691983 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene processed_transcript 4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.2465838 0.08686282 0.47326083 0.08686282 0.27524439 2.3187871 0.05706667 0.02773333 0.06516667 0.03743333 0.7497532461 0.0001321706   FALSE
MSTRG.29941.18 ENSG00000228409 HEK293_OSMI2_2hA HEK293_TMG_2hB CCT6P1 transcribed_unprocessed_pseudogene   4.887631 2.931157 6.888145 0.1233733 0.3354854 1.229824 0.2218539 0.39247939 0.20754608 0.39247939 0.20754608 -0.8875939 0.06866667 0.13290000 0.02940000 -0.10350000 0.9235880870 0.0001321706   FALSE
  • 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.

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 HEK293_TMG_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000228409 E001 0.1472490 0.0441956265 1.000000000   7 65751037 65751047 11 + 0.081 0.000 -10.105
ENSG00000228409 E002 0.1472490 0.0441956265 1.000000000   7 65751048 65751050 3 + 0.081 0.000 -12.090
ENSG00000228409 E003 0.1472490 0.0441956265 1.000000000   7 65751051 65751051 1 + 0.081 0.000 -12.090
ENSG00000228409 E004 0.1472490 0.0441956265 1.000000000   7 65751052 65751053 2 + 0.081 0.000 -12.090
ENSG00000228409 E005 0.2924217 0.0270535731 0.620862935   7 65751054 65751057 4 + 0.149 0.000 -13.044
ENSG00000228409 E006 0.2924217 0.0270535731 0.620862935   7 65751058 65751059 2 + 0.149 0.000 -13.044
ENSG00000228409 E007 0.8825757 0.0137950786 0.514338535 0.649054078 7 65751060 65751068 9 + 0.306 0.181 -0.985
ENSG00000228409 E008 2.1434106 0.0069179559 0.215965800 0.345552212 7 65751069 65751072 4 + 0.539 0.309 -1.247
ENSG00000228409 E009 2.1434106 0.0069179559 0.215965800 0.345552212 7 65751073 65751073 1 + 0.539 0.309 -1.247
ENSG00000228409 E010 2.1434106 0.0069179559 0.215965800 0.345552212 7 65751074 65751077 4 + 0.539 0.309 -1.247
ENSG00000228409 E011 7.4736579 0.0024356033 0.126360763 0.229078158 7 65751078 65751114 37 + 0.953 0.753 -0.778
ENSG00000228409 E012 7.9133287 0.0023064356 0.077186387 0.154985526 7 65751115 65751119 5 + 0.982 0.753 -0.884
ENSG00000228409 E013 9.0936247 0.0019673840 0.018187041 0.047534357 7 65751120 65751141 22 + 1.051 0.753 -1.136
ENSG00000228409 E014 16.0502134 0.0019229871 0.518328976 0.652585661 7 65751142 65751278 137 + 1.219 1.160 -0.209
ENSG00000228409 E015 0.1482932 0.0411597534 0.187472200   7 65751279 65751283 5 + 0.000 0.181 13.225
ENSG00000228409 E016 5.6894940 0.0044719295 0.010707670 0.030470852 7 65752164 65752202 39 + 0.890 0.487 -1.706
ENSG00000228409 E017 7.4683750 0.0022767636 0.020207891 0.051921450 7 65752203 65752278 76 + 0.982 0.665 -1.247
ENSG00000228409 E018 5.2528420 0.0050410884 0.308269957 0.450536692 7 65752279 65752310 32 + 0.815 0.665 -0.610
ENSG00000228409 E019 8.4902345 0.0290717888 0.090100762 0.175291075 7 65754527 65754596 70 + 0.866 1.077 0.789
ENSG00000228409 E020 9.9420757 0.0022117204 0.029088155 0.070173099 7 65754597 65754661 65 + 0.933 1.160 0.828
ENSG00000228409 E021 0.4396707 0.0258303461 0.362604869 0.507014678 7 65755758 65755779 22 + 0.208 0.000 -13.569
ENSG00000228409 E022 29.3285569 0.0006929552 0.703066497 0.801807392 7 65755780 65755952 173 + 1.463 1.437 -0.088
ENSG00000228409 E023 26.6296566 0.0007287114 0.113024909 0.209954698 7 65756469 65756574 106 + 1.451 1.336 -0.396
ENSG00000228409 E024 1.4674191 0.0122216423 0.162304046 0.278121627 7 65757603 65757717 115 + 0.454 0.181 -1.833
ENSG00000228409 E025 31.9334900 0.0009491056 0.344461871 0.488544982 7 65757983 65758137 155 + 1.515 1.453 -0.212
ENSG00000228409 E026 22.9537744 0.0011016861 0.539007517 0.670325450 7 65758236 65758317 82 + 1.340 1.385 0.156
ENSG00000228409 E027 32.1647821 0.0006566396 0.673671427 0.779299078 7 65759175 65759271 97 + 1.504 1.477 -0.094
ENSG00000228409 E028 46.9323155 0.0004872340 0.723491880 0.817303110 7 65759860 65759998 139 + 1.661 1.643 -0.063
ENSG00000228409 E029 0.1482932 0.0411597534 0.187472200   7 65759999 65760051 53 + 0.000 0.181 13.225
ENSG00000228409 E030 0.8855944 0.1713366913 0.139451725 0.247285167 7 65760052 65760423 372 + 0.149 0.477 2.292
ENSG00000228409 E031 44.2526117 0.0005775179 0.701153126 0.800416132 7 65760424 65760556 133 + 1.627 1.648 0.071
ENSG00000228409 E032 16.8549978 0.0011373750 0.021951478 0.055574524 7 65761646 65761748 103 + 1.156 1.346 0.672
ENSG00000228409 E033 39.4753509 0.0005851358 0.160020761 0.275144791 7 65762947 65763020 74 + 1.554 1.632 0.268
ENSG00000228409 E034 59.3542382 0.0005667172 0.002362188 0.008344543 7 65763281 65764282 1002 + 1.705 1.841 0.457