ENSG00000158604

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
ENST00000457408 ENSG00000158604 No_inf pgKDN_inf TMED4 protein_coding protein_coding 67.69233 57.24708 74.17537 0.7758103 1.387697 0.3736805 58.96449 45.290729 67.030171 1.5764897 2.1198964 0.5654915 0.8649917 0.790525 0.903225 0.1127 0.008388227 0.008388227 FALSE TRUE
ENST00000481238 ENSG00000158604 No_inf pgKDN_inf TMED4 protein_coding protein_coding 67.69233 57.24708 74.17537 0.7758103 1.387697 0.3736805 5.44453 7.512964 4.732499 0.6347383 0.5765126 -0.6656538 0.0840750 0.131175 0.063975 -0.0672 0.220063997 0.008388227 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.

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
ENSG00000158604 E001 517.564178 7.862495e-05 3.816054e-01 6.680139e-01 7 44577894 44579628 1735 - 2.718 2.711 -0.024
ENSG00000158604 E002 1.105742 1.125594e-02 5.612496e-01 8.016510e-01 7 44579897 44579903 7 - 0.279 0.368 0.568
ENSG00000158604 E003 34.691018 4.787494e-04 1.488760e-11 1.642020e-09 7 44579904 44581092 1189 - 1.354 1.699 1.185
ENSG00000158604 E004 77.933718 3.048749e-04 5.655461e-01 8.043395e-01 7 44581093 44581239 147 - 1.888 1.907 0.065
ENSG00000158604 E005 53.719618 2.769500e-04 8.724229e-01 9.564008e-01 7 44581449 44581574 126 - 1.735 1.741 0.022
ENSG00000158604 E006 48.182441 3.097189e-04 7.669770e-02 2.831745e-01 7 44581723 44581806 84 - 1.725 1.650 -0.255
ENSG00000158604 E007 25.660342 5.980319e-04 1.080637e-01 3.447070e-01 7 44581807 44581823 17 - 1.467 1.374 -0.322
ENSG00000158604 E008 4.192507 3.425485e-03 1.317545e-01 3.851177e-01 7 44581824 44582046 223 - 0.618 0.801 0.760
ENSG00000158604 E009 21.698699 6.761410e-04 5.012756e-01 7.612931e-01 7 44582047 44582053 7 - 1.375 1.333 -0.146
ENSG00000158604 E010 53.912595 4.379957e-04 6.967445e-02 2.669476e-01 7 44582054 44582287 234 - 1.772 1.699 -0.247

Help

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