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| Differntial gene expression between RNA A-to-I edited tumor samples versus normal samples |
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| The effects of the RNA editing to the stability of the RNA structures |
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Editing gene: TUBB3 (CAeditome ID:10381) |
Gene summary for TUBB3 |
 Gene summary |
| Gene information | Gene symbol | TUBB3 | Gene ID | 10381 |
| Gene name | tubulin beta 3 class III | |
| Synonyms | CDCBM|CDCBM1|CFEOM3|CFEOM3A|FEOM3|TUBB4|beta-4 | |
| Cytomap | 16q24.3 | |
| Type of gene | protein-coding | |
| Description | tubulin beta-3 chainclass III beta-tubulintubulin beta-4 chaintubulin beta-IIItubulin, beta 3 | |
| Modification date | 20210518 | |
| UniProtAcc | . Q13509 | |
| Context |
| Gene ontology of each this gene with evidence of Inferred from Direct Assay (IDA) from Entrez |
| Gene | GO ID | GO term | PubMed ID |
| TUBB3 | GO:1990791 | Tubulin beta-3 chain | 28483977 |
| TUBB3 | GO:0005874 | Tubulin beta-3 chain | 21525035 |
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RNA A-to-I events for TUBB3 |
| RNA A-to-I editing events across TCGA 33 cancers data sets based on Ensembl gene isoform structure. |
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| RNA editing frequencies across 33 cancers of gene: ENSG00000198211.8 |
| RNA A-to-I editing events in Cancer. |
| CAediting_1146390(89925336, +), CAediting_1146391(89925337, +), CAediting_1146392(89925342, +), CAediting_1146393(89925360, +), CAediting_1146394(89925390, +), CAediting_1146395(89925391, +), CAediting_1146396(89925475, +), CAediting_1146397(89925485, +), CAediting_1146398(89925516, +), CAediting_1146399(89925524, +), CAediting_1146400(89925538, +), CAediting_1146401(89925542, +), CAediting_1146402(89925553, +), CAediting_1146403(89926902, +), CAediting_1146404(89926969, +), CAediting_1146405(89927317, +), CAediting_1146406(89927324, +), CAediting_1146407(89927340, +), CAediting_1146408(89928088, +), CAediting_1146409(89928116, +), CAediting_1146410(89928135, +), CAediting_1146411(89928141, +), CAediting_1146412(89928155, +), CAediting_1146413(89928245, +), CAediting_1146414(89929043, +), CAediting_1146415(89929102, +), CAediting_1146416(89929152, +), CAediting_1146417(89929198, +), CAediting_1146418(89929840, +), CAediting_1146419(89930314, +), CAediting_1146420(89930967, +), CAediting_1146421(89935106, +), |
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RNA editing positional annotations for TUBB3 using Annovar |
| Protein coding RNA editing(s). |
| CAeditome ID | Position | Variant type | ENST | NTchange | AAchange | SIFT_score | Polyphen2_HVAR_score | PROVEAN_pred |
| CAediting_1146421 | chr16_89935106_+ | nonsynonymous SNV | ENST00000556922.1 | c.A1696G | p.T566A | D | B | D |
| CAediting_1146421 | chr16_89935106_+ | nonsynonymous SNV | ENST00000315491.10 | c.A655G | p.T219A | D | B | D |
| CAediting_1146421 | chr16_89935106_+ | nonsynonymous SNV | ENST00000554444.4 | c.A439G | p.T147A | D | B | D |
| CAediting_1146421 | chr16_89935106_+ | nonsynonymous SNV | ENST00000555810.4 | c.A439G | p.T147A | D | B | D |
| Gene structure information of RNA editing(s). |
| CAeditome ID | Position | Variant type |
| CAediting_1146390 | chr16_89925336_+ | ncRNA_intronic |
| CAediting_1146391 | chr16_89925337_+ | ncRNA_intronic |
| CAediting_1146392 | chr16_89925342_+ | ncRNA_intronic |
| CAediting_1146393 | chr16_89925360_+ | ncRNA_intronic |
| CAediting_1146394 | chr16_89925390_+ | ncRNA_intronic |
| CAediting_1146395 | chr16_89925391_+ | ncRNA_intronic |
| CAediting_1146396 | chr16_89925475_+ | ncRNA_intronic |
| CAediting_1146397 | chr16_89925485_+ | ncRNA_intronic |
| CAediting_1146398 | chr16_89925516_+ | ncRNA_intronic |
| CAediting_1146399 | chr16_89925524_+ | ncRNA_intronic |
| CAediting_1146400 | chr16_89925538_+ | ncRNA_intronic |
| CAediting_1146401 | chr16_89925542_+ | ncRNA_intronic |
| CAediting_1146402 | chr16_89925553_+ | ncRNA_intronic |
| CAediting_1146403 | chr16_89926902_+ | ncRNA_intronic |
| CAediting_1146404 | chr16_89926969_+ | ncRNA_intronic |
| CAediting_1146405 | chr16_89927317_+ | ncRNA_intronic |
| CAediting_1146406 | chr16_89927324_+ | ncRNA_intronic |
| CAediting_1146407 | chr16_89927340_+ | ncRNA_intronic |
| CAediting_1146408 | chr16_89928088_+ | ncRNA_intronic |
| CAediting_1146409 | chr16_89928116_+ | ncRNA_intronic |
| CAediting_1146410 | chr16_89928135_+ | ncRNA_intronic |
| CAediting_1146411 | chr16_89928141_+ | ncRNA_intronic |
| CAediting_1146412 | chr16_89928155_+ | ncRNA_intronic |
| CAediting_1146413 | chr16_89928245_+ | ncRNA_intronic |
| CAediting_1146414 | chr16_89929043_+ | ncRNA_intronic |
| CAediting_1146415 | chr16_89929102_+ | ncRNA_intronic |
| CAediting_1146416 | chr16_89929152_+ | ncRNA_intronic |
| CAediting_1146417 | chr16_89929198_+ | ncRNA_intronic |
| CAediting_1146418 | chr16_89929840_+ | ncRNA_intronic |
| CAediting_1146419 | chr16_89930314_+ | ncRNA_intronic |
| CAediting_1146420 | chr16_89930967_+ | ncRNA_intronic |
| CAediting_1146421 | chr16_89935106_+ | exonic |
| Repat-regional RNA editing(s). |
| CAeditome ID | Position | Repeat family | Repeat sub family | Repeat name |
| CAediting_1146390 | chr16_89925336_+ | SINE | Alu | AluJb |
| CAediting_1146391 | chr16_89925337_+ | SINE | Alu | AluJb |
| CAediting_1146392 | chr16_89925342_+ | SINE | Alu | AluJb |
| CAediting_1146393 | chr16_89925360_+ | SINE | Alu | AluJb |
| CAediting_1146394 | chr16_89925390_+ | SINE | Alu | AluJb |
| CAediting_1146395 | chr16_89925391_+ | SINE | Alu | AluJb |
| CAediting_1146396 | chr16_89925475_+ | SINE | Alu | AluJb |
| CAediting_1146397 | chr16_89925485_+ | SINE | Alu | AluJb |
| CAediting_1146398 | chr16_89925516_+ | SINE | Alu | AluJb |
| CAediting_1146399 | chr16_89925524_+ | SINE | Alu | AluJb |
| CAediting_1146400 | chr16_89925538_+ | SINE | Alu | AluJb |
| CAediting_1146401 | chr16_89925542_+ | SINE | Alu | AluJb |
| CAediting_1146402 | chr16_89925553_+ | SINE | Alu | AluJb |
| CAediting_1146403 | chr16_89926902_+ | SINE | Alu | AluSq |
| CAediting_1146404 | chr16_89926969_+ | SINE | Alu | AluSq |
| CAediting_1146405 | chr16_89927317_+ | SINE | Alu | AluJr |
| CAediting_1146406 | chr16_89927324_+ | SINE | Alu | AluJr |
| CAediting_1146407 | chr16_89927340_+ | SINE | Alu | AluJr |
| CAediting_1146408 | chr16_89928088_+ | SINE | Alu | AluJb |
| CAediting_1146409 | chr16_89928116_+ | SINE | Alu | AluJb |
| CAediting_1146410 | chr16_89928135_+ | SINE | Alu | AluJb |
| CAediting_1146411 | chr16_89928141_+ | SINE | Alu | AluJb |
| CAediting_1146412 | chr16_89928155_+ | SINE | Alu | AluJb |
| CAediting_1146413 | chr16_89928245_+ | SINE | Alu | AluJb |
| CAediting_1146414 | chr16_89929043_+ | SINE | Alu | AluSz6 |
| CAediting_1146415 | chr16_89929102_+ | SINE | Alu | AluSz6 |
| CAediting_1146416 | chr16_89929152_+ | SINE | Alu | AluSz6 |
| CAediting_1146417 | chr16_89929198_+ | SINE | Alu | AluSz6 |
| CAediting_1146418 | chr16_89929840_+ | SINE | Alu | AluSq |
| CAediting_1146419 | chr16_89930314_+ | SINE | Alu | AluSg |
| CAediting_1146420 | chr16_89930967_+ | SINE | Alu | AluY |
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RNA A-to-I editing events in the alternative splicing sites for TUBB3 |
| RNA A-to-I editing(s) in the alternative splicing sites. |
| AStype | CAeditomID | Editing position | AS position | AS direction | Exonic location | Wildtype sequence | Wildtype splicing strength | RNA edited sequence | RNA edited splicing strength |
| Differential percent of spliced in (PSI) between RNA A-to-I edited and non-edited samples for ENSG00000198211.8.TUBB3. |
| Correlation between RNA A-to-I editing and PSI for ENSG00000198211.8.TUBB3. |
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Differntial gene expression between RNA A-to-I edited versus non-edited samples for TUBB3 |
| Differential gene expressions between RNA A-to-I edited and non-edited tumor samples. * The grey color means N/A. |
| Correlation between RNA A-to-I editing and gene expression. |
| - Differentially expressed gene between RNA A-to-I edited samples versus non-edited samples. * Click on the image to enlarge it in a new window. |
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Protein coding region RNA A-to-I editings for TUBB3 |
| - Lollipop plot for RNA A-to-I editings across protein structure. * Click on the image to enlarge it in a new window. |
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The effects of the RNA editing to the miRNA binding sites for TUBB3 |
| **If you are searching a miRNA gene with RNA editing events in its seed regions, please see the search pages of miRNA targets to discover the effects of this RNA editing event to miRNA regulations. For more information, please check the files in the Download page. |
| RNA A-to-I editing in the 3'-UTR regions of mRNA gained miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_1146421 | chr16_89935106_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-10394-3p | 89935104 | 89935111 | 8mer-1a | 89935091 | 89935111 | 157.00 | -29.39 |
| CAediting_1146421 | chr16_89935106_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-3178 | 89935104 | 89935111 | 8mer-1a | 89935095 | 89935111 | 163.00 | -31.82 |
| CAediting_1146421 | chr16_89935106_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-4479 | 89935102 | 89935108 | 7mer-m8 | 89935089 | 89935109 | 157.00 | -27.41 |
| RNA A-to-I editing in the 3'-UTR regions of mRNA lost miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_1146421 | chr16_89935106_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-1204 | 89935101 | 89935107 | 7mer-m8 | 89935088 | 89935108 | 144 | -15.86 |
| CAediting_1146421 | chr16_89935106_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-1268a | 89935104 | 89935111 | 8mer-1a | 89935094 | 89935111 | 146 | -19.99 |
| CAediting_1146421 | chr16_89935106_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-4435 | 89935099 | 89935105 | 7mer-m8 | 89935085 | 89935106 | 140 | -17.64 |
| CAediting_1146421 | chr16_89935106_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-4435 | 89935099 | 89935105 | 7mer-m8 | 89935085 | 89935106 | 140 | -17.64 |
| RNA A-to-I editing in lncRNA gained miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in lncRNA lost miRNA binding sites. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to lncRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs lost binding to lncRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| RNA A-to-I editing in miRNAs gained binding to the 3'-UTR region of mRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_748296 | chr10_51299626_+ | ENSG00000258947.5 | ENST00000556536 | hsa-miR-605-3p | 89934959 | 89934966 | 8mer-1a | 89934945 | 89934966 | 153 | -19 |
| CAediting_1306324 | chr19_13836464_- | ENSG00000258947.5 | ENST00000556536 | hsa-miR-27a-3p | 89934827 | 89934833 | 7mer-m8 | 89934814 | 89934834 | 151 | -17.03 |
| CAediting_748296 | chr10_51299626_+ | ENSG00000258947.5 | ENST00000557490 | hsa-miR-605-3p | 89934959 | 89934966 | 8mer-1a | 89934945 | 89934966 | 153 | -19 |
| CAediting_1306324 | chr19_13836464_- | ENSG00000258947.5 | ENST00000557490 | hsa-miR-27a-3p | 89934827 | 89934833 | 7mer-m8 | 89934814 | 89934834 | 151 | -17.03 |
| CAediting_748296 | chr10_51299626_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-605-3p | 89934959 | 89934966 | 8mer-1a | 89934945 | 89934966 | 153 | -19 |
| CAediting_1306324 | chr19_13836464_- | ENSG00000258947.5 | ENST00000555609 | hsa-miR-27a-3p | 89934827 | 89934833 | 7mer-m8 | 89934814 | 89934834 | 151 | -17.03 |
| CAediting_573001 | chr7_92204086_- | ENSG00000258947.5 | ENST00000557262 | hsa-miR-1285-5p | 89933838 | 89933845 | 8mer-1a | 89933825 | 89933845 | 141 | -15.93 |
| CAediting_573001 | chr7_92204086_- | ENSG00000258947.5 | ENST00000554336 | hsa-miR-1285-5p | 89933838 | 89933845 | 8mer-1a | 89933825 | 89933845 | 141 | -15.93 |
| CAediting_1368054 | chr19_46709310_- | ENSG00000258947.5 | ENST00000555609 | hsa-miR-320e | 89935182 | 89935189 | 8mer-1a | 89935172 | 89935189 | 156 | -23.03 |
| CAediting_396018 | chr5_1062918_- | ENSG00000258947.5 | ENST00000555609 | hsa-miR-4635 | 89935092 | 89935098 | 7mer-m8 | 89935077 | 89935099 | 148 | -12.48 |
| CAediting_396018 | chr5_1062918_- | ENSG00000258947.5 | ENST00000555609 | hsa-miR-4635 | 89935530 | 89935537 | 8mer-1a | 89935517 | 89935537 | 146 | -18.97 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000555609 | hsa-miR-6840-3p | 89935175 | 89935181 | 7mer-m8 | 89935164 | 89935182 | 148 | -32.11 |
| CAediting_573000 | chr7_92204081_- | ENSG00000258947.5 | ENST00000555609 | hsa-miR-1285-5p | 89935751 | 89935757 | 7mer-m8 | 89935738 | 89935758 | 158 | -22.34 |
| CAediting_573001 | chr7_92204086_- | ENSG00000258947.5 | ENST00000553967 | hsa-miR-1285-5p | 89933838 | 89933845 | 8mer-1a | 89933825 | 89933845 | 141 | -15.93 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000198211.8 | ENST00000556922 | hsa-miR-503-5p | 89935882 | 89935887 | 6mer | 89935867 | 89935888 | 142 | -26.8 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000258947.5 | ENST00000554444 | hsa-miR-503-5p | 89935882 | 89935887 | 6mer | 89935867 | 89935888 | 142 | -26.8 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000258947.5 | ENST00000315491 | hsa-miR-503-5p | 89935882 | 89935887 | 6mer | 89935867 | 89935888 | 142 | -26.8 |
| CAediting_1524209 | chrX_134546392_- | ENSG00000258947.5 | ENST00000555609 | hsa-miR-503-5p | 89935882 | 89935887 | 6mer | 89935867 | 89935888 | 142 | -26.8 |
| RNA A-to-I editing in miRNAs lost binding to the 3'-UTR mRNA. |
| CAeditom_ID | Position | ENSG | ENST | miRNA | Targetscan start | Targetscan end | Targetscan score | Miranda start | Miranda end | Miranda score | Miranda energy |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000557262 | hsa-miR-6840-3p | 89933929 | 89933935 | 7mer-m8 | 89933916 | 89933936 | 154 | -26.76 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000557262 | hsa-miR-6840-3p | 89933970 | 89933976 | 7mer-m8 | 89933955 | 89933977 | 151 | -24.47 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000557262 | hsa-miR-6840-3p | 89934011 | 89934017 | 7mer-m8 | 89933996 | 89934018 | 155 | -27.27 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000557262 | hsa-miR-6840-3p | 89934052 | 89934058 | 7mer-m8 | 89934037 | 89934059 | 155 | -27.27 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000554336 | hsa-miR-6840-3p | 89933929 | 89933935 | 7mer-m8 | 89933916 | 89933936 | 154 | -26.76 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000554336 | hsa-miR-6840-3p | 89933970 | 89933976 | 7mer-m8 | 89933955 | 89933977 | 151 | -24.47 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000554336 | hsa-miR-6840-3p | 89934011 | 89934017 | 7mer-m8 | 89933996 | 89934018 | 155 | -27.27 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000554336 | hsa-miR-6840-3p | 89934052 | 89934058 | 7mer-m8 | 89934037 | 89934059 | 155 | -27.27 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000554336 | hsa-miR-6840-3p | 89934175 | 89934181 | 7mer-m8 | 89934162 | 89934182 | 154 | -26.76 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000554336 | hsa-miR-6840-3p | 89934216 | 89934222 | 7mer-m8 | 89934203 | 89934223 | 154 | -26.76 |
| CAediting_580943 | chr7_100356700_+ | ENSG00000258947.5 | ENST00000554336 | hsa-miR-6840-3p | 89934257 | 89934263 | 7mer-m8 | 89934242 | 89934264 | 151 | -24.47 |
| CAediting_468389 | chr6_31355314_- | ENSG00000258947.5 | ENST00000555609 | hsa-miR-6891-5p | 89935163 | 89935169 | 7mer-m8 | 89935153 | 89935170 | 153 | -19.02 |
| Differentially expressed gene-miRNA network |
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The effects of the RNA editing to the stability of the RNA structures for TUBB3 |
| - RNA A-to-I editing in mRNA. * Click on the image to enlarge it in a new window. |
| ENST | ENST type | RNA structure without RNA A-to-I editing. | RNA structure with RNA A-to-I editing. |
| RNA A-to-I editing in RNA structures for Minimum free energy (MFE). |
| CAeditom_ID | ENST | Editing_Position | MFE_withoneAI | MFE_withoutAI | MFE_withmultipleAI |
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Relation with ADAR for TUBB3 |
| Correlation between ADAR gene expression and RNA editing frequency |
| Cancer | CAeditomID | position | ADAR1 (p-val) | ADAR1 (coeff.) | ADAR2 (p-val) | ADAR2 (coeff.) | ADAR3 (p-val) | ADAR3 (coeff.) |
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Relation with cancer stages for TUBB3 |
| Correlation between Cancer stages and RNA editing frequency |
| Cancer | Stage_type | CAeditomID | position | P-val | Coeff. |
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Relation with survival for TUBB3 |
| Correlation between RNA editing and survival |
| Cancer | CAeditomID | position | KMpvalue | Coxpvalue | CoxHR |
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RelatedDrugs for TUBB3 |
| Approved drugs targeting this gene. (DrugBank Version 5.1.8 2021-01-03) |
| Gene | UniProtAcc | DrugBank ID | Drug name | Drug activity | Drug type | Drug status |
| TUBB3 | Q13509 | DB04845 | Ixabepilone | Tubulin beta-3 chain | SmallMoleculeDrug | approved|investigational |
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RelatedDiseases for TUBB3 |
| Diseases associated with this gene. (DisGeNet 7.0) |
| Gene | Disease ID | Disease name | # pubmeds | Source |
| TUBB3 | C2748801 | FIBROSIS OF EXTRAOCULAR MUSCLES, CONGENITAL, 3A, WITH OR WITHOUT EXTRAOCULAR INVOLVEMENT | 3 | CTD_human;GENOMICS_ENGLAND;UNIPROT |
| TUBB3 | C3808397 | CORTICAL DYSPLASIA, COMPLEX, WITH OTHER BRAIN MALFORMATIONS 1 | 2 | CTD_human;GENOMICS_ENGLAND;ORPHANET;UNIPROT |
| TUBB3 | C0006142 | Malignant neoplasm of breast | 1 | CTD_human |
| TUBB3 | C0678222 | Breast Carcinoma | 1 | CTD_human |
| TUBB3 | C0919267 | ovarian neoplasm | 1 | CTD_human |
| TUBB3 | C1140680 | Malignant neoplasm of ovary | 1 | CTD_human |
| TUBB3 | C1257931 | Mammary Neoplasms, Human | 1 | CTD_human |
| TUBB3 | C1302995 | Congenital Fibrosis of the Extraocular Muscles | 1 | GENOMICS_ENGLAND |
| TUBB3 | C1458155 | Mammary Neoplasms | 1 | CTD_human |
| TUBB3 | C4704874 | Mammary Carcinoma, Human | 1 | CTD_human |
