ENSG00000125744

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
ENST00000344680 ENSG00000125744 No_inf pgKDN_inf RTN2 protein_coding protein_coding 36.57454 41.06237 34.21301 1.444221 2.249095 -0.2632014 8.1714919 2.596964 10.70077 1.026769 2.096030 2.0386203 0.2411417 0.063000 0.32655 0.263550 0.088705348 0.009434743 FALSE TRUE
ENST00000430715 ENSG00000125744 No_inf pgKDN_inf RTN2 protein_coding protein_coding 36.57454 41.06237 34.21301 1.444221 2.249095 -0.2632014 20.5447740 29.024491 16.57937 1.430090 2.273871 -0.8075087 0.5503583 0.706325 0.47820 -0.228125 0.009434743 0.009434743 FALSE TRUE
ENST00000593187 ENSG00000125744 No_inf pgKDN_inf RTN2 protein_coding retained_intron 36.57454 41.06237 34.21301 1.444221 2.249095 -0.2632014 0.7597313 2.279194 0.00000 1.321140 0.000000 -7.8386958 0.0182250 0.054675 0.00000 -0.054675 0.521658985 0.009434743   FALSE
MSTRG.15326.1 ENSG00000125744 No_inf pgKDN_inf RTN2 protein_coding   36.57454 41.06237 34.21301 1.444221 2.249095 -0.2632014 2.2863850 2.439548 2.71324 1.071944 1.277424 0.1528086 0.0626250 0.060650 0.07810 0.017450 0.965354960 0.009434743 TRUE 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
ENSG00000125744 E001 0.7358125 0.0143983345 9.855085e-01 9.990203e-01 19 45485272 45485293 22 - 0.238 0.240 0.017
ENSG00000125744 E002 49.4439578 0.0027828970 9.513345e-03 7.786339e-02 19 45485294 45485637 344 - 1.642 1.753 0.377
ENSG00000125744 E003 10.8023550 0.0013594822 4.808055e-01 7.460464e-01 19 45485638 45485648 11 - 1.041 1.099 0.214
ENSG00000125744 E004 17.1727963 0.0105600758 6.313232e-01 8.418537e-01 19 45485649 45485681 33 - 1.238 1.278 0.140
ENSG00000125744 E005 14.7117754 0.0010860899 6.590080e-01 8.575929e-01 19 45485682 45485695 14 - 1.179 1.211 0.113
ENSG00000125744 E006 35.6385065 0.0021988512 6.279088e-02 2.518640e-01 19 45485696 45485789 94 - 1.514 1.606 0.316
ENSG00000125744 E007 0.2543986 0.0161059376 2.370271e-01   19 45485935 45486054 120 - 0.000 0.174 11.092
ENSG00000125744 E008 32.6365621 0.0004773457 4.064884e-03 4.292002e-02 19 45486055 45486113 59 - 1.447 1.590 0.489
ENSG00000125744 E009 26.2146156 0.0005871073 4.423538e-02 2.056957e-01 19 45488471 45488517 47 - 1.374 1.485 0.384
ENSG00000125744 E010 2.1410550 0.0109885694 8.754310e-04 1.354820e-02 19 45488518 45488636 119 - 0.172 0.671 2.923
ENSG00000125744 E011 15.6239542 0.0009177602 1.539200e-01 4.189936e-01 19 45488637 45488706 70 - 1.165 1.267 0.359
ENSG00000125744 E012 0.3723461 0.1805224086 6.180213e-01   19 45488707 45488759 53 - 0.095 0.174 1.016
ENSG00000125744 E013 0.1268540 0.0122726232 5.298323e-01   19 45488760 45488847 88 - 0.000 0.096 10.103
ENSG00000125744 E014 0.1271363 0.0122823367 5.298443e-01   19 45488848 45488986 139 - 0.000 0.096 10.103
ENSG00000125744 E015 0.3712740 0.0165192891 5.749304e-01   19 45488987 45489103 117 - 0.095 0.174 1.017
ENSG00000125744 E016 31.7414030 0.0006592898 4.026507e-02 1.945405e-01 19 45489346 45489553 208 - 1.459 1.562 0.354
ENSG00000125744 E017 10.9550916 0.0012558187 1.464091e-01 4.074104e-01 19 45493160 45493378 219 - 1.011 1.132 0.441
ENSG00000125744 E018 1.2063377 0.1056832747 2.703651e-01 5.640056e-01 19 45493886 45494117 232 - 0.432 0.240 -1.205
ENSG00000125744 E019 0.2457744 0.0162850637 9.919822e-01   19 45494118 45494165 48 - 0.095 0.096 0.017
ENSG00000125744 E020 18.0101592 0.0055317825 1.335485e-10 1.319195e-08 19 45494166 45494420 255 - 1.466 0.972 -1.754
ENSG00000125744 E021 7.8142084 0.0018794232 3.678858e-05 1.026643e-03 19 45494526 45494554 29 - 1.111 0.694 -1.598
ENSG00000125744 E022 29.5261657 0.0005744464 4.111008e-12 4.971370e-10 19 45494555 45495005 451 - 1.639 1.261 -1.305
ENSG00000125744 E023 3.5938877 0.0038065655 8.405850e-04 1.311050e-02 19 45495095 45495139 45 - 0.835 0.394 -1.983
ENSG00000125744 E024 1.5764569 0.0096706230 4.240556e-01 7.032475e-01 19 45495140 45495214 75 - 0.469 0.348 -0.661
ENSG00000125744 E025 0.2455571 0.0162858939 9.922370e-01   19 45496591 45496791 201 - 0.095 0.096 0.017
ENSG00000125744 E026 5.8082746 0.0132482654 3.141202e-02 1.672269e-01 19 45496792 45497055 264 - 0.944 0.694 -0.983

Help

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