ENSG00000143013

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
ENST00000370544 ENSG00000143013 No_inf pgKDN_inf LMO4 protein_coding protein_coding 64.14155 31.58887 86.17415 5.042092 4.269089 1.44755 18.495222 6.438913 24.890495 0.4285384 0.5266032 1.9490465 0.28151667 0.228825 0.291700 0.062875 0.76680944 0.04051534 FALSE  
ENST00000489303 ENSG00000143013 No_inf pgKDN_inf LMO4 protein_coding protein_coding_CDS_not_defined 64.14155 31.58887 86.17415 5.042092 4.269089 1.44755 2.715882 2.753766 2.351092 0.4520815 0.3348846 -0.2271811 0.05256667 0.089650 0.027275 -0.062375 0.11224774 0.04051534 TRUE  
ENST00000495705 ENSG00000143013 No_inf pgKDN_inf LMO4 protein_coding protein_coding_CDS_not_defined 64.14155 31.58887 86.17415 5.042092 4.269089 1.44755 36.270455 17.302062 50.764077 5.0859120 4.9560619 1.5523145 0.54465000 0.504350 0.584650 0.080300 0.83358214 0.04051534 FALSE  
MSTRG.1283.4 ENSG00000143013 No_inf pgKDN_inf LMO4 protein_coding   64.14155 31.58887 86.17415 5.042092 4.269089 1.44755 1.866440 2.434154 1.223298 0.2546244 0.2422270 -0.9868139 0.04286667 0.088200 0.014425 -0.073775 0.04051534 0.04051534 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.

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
ENSG00000143013 E001 14.396862 0.0011032514 5.628687e-02 2.365417e-01 1 87328504 87328708 205 + 1.208 1.049 -0.571
ENSG00000143013 E002 49.084977 0.0004975414 4.374021e-05 1.195078e-03 1 87328880 87329098 219 + 1.727 1.533 -0.660
ENSG00000143013 E003 46.093160 0.0007561871 1.864440e-04 3.944948e-03 1 87329099 87329244 146 + 1.698 1.514 -0.626
ENSG00000143013 E004 7.563333 0.0054352336 2.425943e-08 1.609358e-06 1 87331065 87331226 162 + 0.633 1.202 2.181
ENSG00000143013 E005 7.277074 0.0387057016 5.201828e-04 9.008299e-03 1 87331227 87331309 83 + 0.695 1.138 1.690
ENSG00000143013 E006 6.966271 0.0020096882 1.184197e-02 8.976600e-02 1 87331668 87331780 113 + 0.774 1.035 0.993
ENSG00000143013 E007 7.379432 0.0028444645 1.807390e-04 3.846874e-03 1 87331781 87331814 34 + 0.736 1.114 1.435
ENSG00000143013 E008 10.582317 0.0014441067 3.069385e-06 1.228073e-04 1 87331815 87332012 198 + 0.861 1.267 1.482
ENSG00000143013 E009 121.045064 0.0001888403 5.206058e-02 2.265454e-01 1 87332013 87332251 239 + 2.076 2.023 -0.176
ENSG00000143013 E010 95.682094 0.0001643340 8.345585e-01 9.403559e-01 1 87339536 87339632 97 + 1.955 1.964 0.029
ENSG00000143013 E011 159.297305 0.0002288845 3.245112e-01 6.168865e-01 1 87340047 87340202 156 + 2.169 2.194 0.084
ENSG00000143013 E012 306.337342 0.0000708447 7.974680e-01 9.235498e-01 1 87344788 87348923 4136 + 2.458 2.464 0.020

Help

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