ENSG00000110400

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
ENST00000264025 ENSG00000110400 HEK293_OSMI2_2hA HEK293_TMG_2hB NECTIN1 protein_coding protein_coding 10.60627 11.11533 10.7117 0.608005 0.4269629 -0.05331384 8.3513588 9.431030 7.9581330 0.7404209 0.08289646 -0.2447025 0.78503333 0.8461333 0.7458667 -0.10026667 1.941006e-01 9.547045e-17 FALSE TRUE
ENST00000524429 ENSG00000110400 HEK293_OSMI2_2hA HEK293_TMG_2hB NECTIN1 protein_coding retained_intron 10.60627 11.11533 10.7117 0.608005 0.4269629 -0.05331384 0.6621178 1.096286 0.4647611 0.0848090 0.08827453 -1.2204514 0.06194167 0.1001333 0.0437000 -0.05643333 3.803403e-02 9.547045e-17   FALSE
ENST00000524510 ENSG00000110400 HEK293_OSMI2_2hA HEK293_TMG_2hB NECTIN1 protein_coding processed_transcript 10.60627 11.11533 10.7117 0.608005 0.4269629 -0.05331384 1.1025694 0.000000 1.9278143 0.0000000 0.38879292 7.5982865 0.10632500 0.0000000 0.1776667 0.17766667 9.547045e-17 9.547045e-17 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_2hB HEK293_OSMI2_2hA log2fold_HEK293_OSMI2_2hA_HEK293_TMG_2hB
ENSG00000110400 E001 0.0000000       11 119623408 119623747 340 -      
ENSG00000110400 E002 0.0000000       11 119629095 119629276 182 -      
ENSG00000110400 E003 0.0000000       11 119638098 119638133 36 -      
ENSG00000110400 E004 0.2214452 0.0384996965 6.059458e-01   11 119638134 119638247 114 - 0.000 0.117 8.490
ENSG00000110400 E005 0.2214452 0.0384996965 6.059458e-01   11 119638731 119638806 76 - 0.000 0.117 10.019
ENSG00000110400 E006 0.5483223 0.0202299602 7.171507e-01 8.126158e-01 11 119639865 119640012 148 - 0.128 0.209 0.840
ENSG00000110400 E007 1147.1559308 0.0042082991 4.070770e-07 3.664679e-06 11 119660992 119665297 4306 - 2.978 3.103 0.417
ENSG00000110400 E008 13.3885840 0.0061124333 3.061314e-03 1.044666e-02 11 119674382 119674591 210 - 0.915 1.275 1.301
ENSG00000110400 E009 13.4396255 0.0013521370 7.417342e-04 3.049332e-03 11 119674592 119674647 56 - 0.897 1.282 1.398
ENSG00000110400 E010 94.4900305 0.0003497932 9.910993e-03 2.854375e-02 11 119675159 119675310 152 - 1.992 1.957 -0.116
ENSG00000110400 E011 0.3268771 0.0292633288 8.573931e-01   11 119675311 119675669 359 - 0.128 0.117 -0.161
ENSG00000110400 E012 2.6914382 0.0064681763 3.655210e-02 8.462611e-02 11 119676815 119677094 280 - 0.308 0.699 1.952
ENSG00000110400 E013 1.7368458 0.0884934098 3.576221e-01 5.020447e-01 11 119677095 119677101 7 - 0.308 0.533 1.225
ENSG00000110400 E014 82.2518185 0.0020441763 9.808874e-03 2.829093e-02 11 119677102 119677219 118 - 1.941 1.889 -0.175
ENSG00000110400 E015 136.2229842 0.0015228933 8.363082e-04 3.388790e-03 11 119677555 119677857 303 - 2.162 2.109 -0.178
ENSG00000110400 E016 122.2320504 0.0011123825 8.608767e-09 1.074165e-07 11 119678415 119678765 351 - 2.157 2.020 -0.457
ENSG00000110400 E017 0.0000000       11 119687305 119687357 53 -      
ENSG00000110400 E018 61.7501320 0.0169104840 3.301278e-05 1.943738e-04 11 119728475 119729200 726 - 1.914 1.665 -0.841