ENSG00000112996

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
ENST00000230914 ENSG00000112996 HEK293_OSMI2_2hA HEK293_TMG_2hB MRPS30 protein_coding processed_transcript 24.38572 18.23633 31.17656 1.45065 1.139295 0.7733185 1.139822 0.000000 2.116901 0.0000000 0.5611889 7.7326090 0.03945417 0.0000 0.0694000 0.06940000 2.663311e-09 2.663311e-09    
ENST00000507110 ENSG00000112996 HEK293_OSMI2_2hA HEK293_TMG_2hB MRPS30 protein_coding protein_coding 24.38572 18.23633 31.17656 1.45065 1.139295 0.7733185 18.148538 12.297777 24.055457 0.6066604 0.9036990 0.9673936 0.74751667 0.6779 0.7758667 0.09796667 4.896724e-01 2.663311e-09 FALSE  
ENST00000515647 ENSG00000112996 HEK293_OSMI2_2hA HEK293_TMG_2hB MRPS30 protein_coding processed_transcript 24.38572 18.23633 31.17656 1.45065 1.139295 0.7733185 4.350990 5.155905 3.707998 0.7322520 1.9910340 -0.4744951 0.17814583 0.2803 0.1145000 -0.16580000 5.889207e-01 2.663311e-09 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
ENSG00000112996 E001 75.5279679 0.0004938246 3.322815e-02 7.825383e-02 5 44808947 44809032 86 + 1.932 1.816 -0.391
ENSG00000112996 E002 294.4218259 0.0013679525 2.583781e-01 3.956239e-01 5 44809033 44809563 531 + 2.495 2.437 -0.193
ENSG00000112996 E003 0.9275265 0.0151859176 7.934783e-01 8.679450e-01 5 44809843 44809992 150 + 0.315 0.254 -0.419
ENSG00000112996 E004 215.9013848 0.0016619163 3.199166e-01 4.630006e-01 5 44811009 44811154 146 + 2.335 2.333 -0.009
ENSG00000112996 E005 130.3024689 0.0002718466 1.120454e-03 4.372034e-03 5 44811915 44811945 31 + 2.084 2.156 0.241
ENSG00000112996 E006 164.5326331 0.0002536761 2.405240e-01 3.747712e-01 5 44811946 44811984 39 + 2.216 2.221 0.014
ENSG00000112996 E007 154.0412126 0.0002563589 3.270530e-01 4.704923e-01 5 44811985 44812020 36 + 2.190 2.190 0.000
ENSG00000112996 E008 309.0035560 0.0001917681 3.252561e-05 1.918453e-04 5 44813106 44813282 177 + 2.468 2.521 0.175
ENSG00000112996 E009 0.4355181 0.6054092948 4.360217e-01 5.781569e-01 5 44813283 44813629 347 + 0.253 0.001 -9.342
ENSG00000112996 E010 349.6580043 0.0002586141 6.423856e-06 4.462380e-05 5 44814913 44815218 306 + 2.520 2.575 0.183
ENSG00000112996 E011 116.9866932 0.0002664319 5.120627e-01 6.469967e-01 5 44815219 44815563 345 + 2.074 2.068 -0.021
ENSG00000112996 E012 220.5561544 0.0131054529 1.273425e-10 2.208813e-09 5 44816443 44820428 3986 + 2.478 2.091 -1.294