ENSG00000135900

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
ENST00000258383 ENSG00000135900 HEK293_OSMI2_2hA HEK293_TMG_2hB MRPL44 protein_coding protein_coding 36.93843 37.72042 42.80077 4.213327 0.8674097 0.1822455 20.08019 26.26547 19.40959 3.5331504 0.3248382 -0.4362039 0.5586375 0.6930667 0.4535667 -0.2395000 4.023136e-15 4.023136e-15 FALSE TRUE
MSTRG.20022.3 ENSG00000135900 HEK293_OSMI2_2hA HEK293_TMG_2hB MRPL44 protein_coding   36.93843 37.72042 42.80077 4.213327 0.8674097 0.1822455 15.89665 11.17958 20.42946 0.8266903 1.1247321 0.8692013 0.4166000 0.2987000 0.4767333 0.1780333 2.251636e-07 4.023136e-15 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
ENSG00000135900 E001 0.4470576 0.0212476204 4.876433e-01 6.252923e-01 2 223944502 223944555 54 + 0.230 0.115 -1.210
ENSG00000135900 E002 4.9424576 0.0324979358 6.014083e-01 7.225430e-01 2 223957418 223957430 13 + 0.819 0.741 -0.309
ENSG00000135900 E003 27.3434957 0.0007168704 5.790143e-01 7.040057e-01 2 223957431 223957462 32 + 1.473 1.437 -0.124
ENSG00000135900 E004 80.8332789 0.0004456036 5.676778e-01 6.944471e-01 2 223957463 223957487 25 + 1.924 1.901 -0.076
ENSG00000135900 E005 180.1182710 0.0002699615 1.616638e-01 2.772779e-01 2 223957488 223957651 164 + 2.278 2.241 -0.122
ENSG00000135900 E006 649.6982627 0.0001327109 3.372046e-05 1.980359e-04 2 223959534 223960002 469 + 2.842 2.791 -0.168
ENSG00000135900 E007 421.4245964 0.0001527102 1.448947e-01 2.547031e-01 2 223963756 223963934 179 + 2.639 2.615 -0.077
ENSG00000135900 E008 437.9609055 0.0002145715 3.319643e-01 4.755899e-01 2 223966863 223967072 210 + 2.632 2.648 0.052
ENSG00000135900 E009 402.6334585 0.0001837085 4.684543e-12 1.028834e-10 2 223967073 223967714 642 + 2.535 2.653 0.394
ENSG00000135900 E010 0.2934659 0.0283193155 9.192199e-01   2 223969247 223969295 49 + 0.130 0.115 -0.212