ENSG00000004660

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
ENST00000348335 ENSG00000004660 HEK293_OSMI2_6hA HEK293_TMG_6hB CAMKK1 protein_coding protein_coding 10.4378 13.00093 6.681257 1.0821 0.1174388 -0.9593744 8.478897 11.99766 2.916915 1.302678 0.6451239 -2.036503 0.780475 0.9188667 0.4351333 -0.4837333 9.880093e-04 1.800943e-14 FALSE TRUE
ENST00000381769 ENSG00000004660 HEK293_OSMI2_6hA HEK293_TMG_6hB CAMKK1 protein_coding protein_coding 10.4378 13.00093 6.681257 1.0821 0.1174388 -0.9593744 1.104077 0.00000 2.912751 0.000000 0.5389858 8.191183 0.130275 0.0000000 0.4373667 0.4373667 1.800943e-14 1.800943e-14 FALSE 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.

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_6hB HEK293_OSMI2_6hA log2fold_HEK293_OSMI2_6hA_HEK293_TMG_6hB
ENSG00000004660 E001 453.5401167 0.0029416251 0.0001214064 0.001754689 17 3860315 3862009 1695 - 2.542 2.651 0.365
ENSG00000004660 E002 80.1420232 0.0005722365 0.0520816350 0.184590619 17 3862010 3862283 274 - 1.802 1.904 0.343
ENSG00000004660 E003 8.9469159 0.0650766145 0.5092293850 0.707337201 17 3865157 3865907 751 - 0.864 1.002 0.520
ENSG00000004660 E004 59.2001342 0.0049245676 0.6012680721 0.770993283 17 3865908 3866011 104 - 1.715 1.765 0.171
ENSG00000004660 E005 92.7259770 0.0004935067 0.1488516106 0.360680140 17 3869487 3869615 129 - 1.966 1.927 -0.129
ENSG00000004660 E006 91.7446893 0.0005589029 0.0197024156 0.094903657 17 3869801 3869888 88 - 1.986 1.914 -0.242
ENSG00000004660 E007 86.8461090 0.0005742167 0.0001076646 0.001590321 17 3872554 3872627 74 - 2.001 1.867 -0.449
ENSG00000004660 E008 67.4382444 0.0006582243 0.0012104738 0.011512449 17 3873409 3873462 54 - 1.889 1.763 -0.425
ENSG00000004660 E009 113.8983705 0.0003915307 0.0646018317 0.213001920 17 3876223 3876422 200 - 2.058 2.011 -0.157
ENSG00000004660 E010 4.6283466 0.0879143914 0.9361331541 0.970300474 17 3878831 3880345 1515 - 0.691 0.726 0.147
ENSG00000004660 E011 62.5463294 0.0006445019 0.9563504798 0.980069805 17 3880346 3880434 89 - 1.760 1.774 0.048
ENSG00000004660 E012 6.1489742 0.0433222788 0.1189833515 0.314202043 17 3881499 3881626 128 - 0.965 0.742 -0.864
ENSG00000004660 E013 26.4651629 0.0418971904 0.9803780237 0.991949197 17 3881627 3881648 22 - 1.404 1.409 0.016
ENSG00000004660 E014 8.0124812 0.0086555536 0.0460066934 0.170062137 17 3881649 3882256 608 - 1.067 0.846 -0.827
ENSG00000004660 E015 4.2004680 0.0062507192 0.9788344128 0.991214672 17 3882257 3882370 114 - 0.687 0.706 0.077
ENSG00000004660 E016 1.7952049 0.0261360237 0.6674509251 0.814607197 17 3882371 3882527 157 - 0.468 0.399 -0.360
ENSG00000004660 E017 37.0261230 0.0077369950 0.7089687303 0.841134903 17 3882528 3882564 37 - 1.559 1.549 -0.034
ENSG00000004660 E018 50.3529100 0.0021893684 0.7834538498 0.886663559 17 3883042 3883175 134 - 1.680 1.683 0.009
ENSG00000004660 E019 36.8755474 0.0009649350 0.3325006075 0.571260566 17 3883429 3883480 52 - 1.491 1.570 0.268
ENSG00000004660 E020 41.7364250 0.0010960257 0.9840253298 0.993827661 17 3883884 3883937 54 - 1.588 1.606 0.061
ENSG00000004660 E021 35.1128854 0.0028711831 0.8451888388 0.922232030 17 3884380 3884427 48 - 1.504 1.533 0.098
ENSG00000004660 E022 92.5143421 0.0028317693 0.3821567893 0.613980932 17 3885328 3885730 403 - 1.950 1.925 -0.085
ENSG00000004660 E023 0.4762370 0.0217681645 0.8985347544   17 3890693 3890743 51 - 0.171 0.155 -0.167
ENSG00000004660 E024 13.1780795 0.0023919980 0.0086147980 0.052117518 17 3892939 3893053 115 - 0.890 1.194 1.111
ENSG00000004660 E025 0.1723744 0.0339800793 1.0000000000   17 3894227 3894891 665 - 0.000 0.085 8.104