mutLBSgeneDB |
Gene summary for TRA2B |
Gene summary |
Basic gene Info. | Gene symbol | TRA2B |
Gene name | transformer 2 beta homolog (Drosophila) | |
Synonyms | Htra2-beta|PPP1R156|SFRS10|SRFS10|TRA2-BETA|TRAN2B | |
Cytomap | UCSC genome browser: 3q26.2-q27 | |
Type of gene | protein-coding | |
RefGenes | NM_001243879.1, NM_004593.2, | |
Description | TRA-2 betaprotein phosphatase 1, regulatory subunit 156splicing factor, arginine/serine-rich 10 (transformer 2 homolog, Drosophila)transformer-2 protein homolog Btransformer-2 protein homolog beta | |
Modification date | 20141207 | |
dbXrefs | MIM : 602719 | |
HGNC : HGNC | ||
HPRD : 04097 | ||
Protein | UniProt: P62995 go to UniProt's Cross Reference DB Table | |
Expression | CleanEX: HS_TRA2B | |
BioGPS: 6434 | ||
Pathway | NCI Pathway Interaction Database: TRA2B | |
KEGG: TRA2B | ||
REACTOME: TRA2B | ||
Pathway Commons: TRA2B | ||
Context | iHOP: TRA2B | |
ligand binding site mutation search in PubMed: TRA2B | ||
UCL Cancer Institute: TRA2B | ||
Assigned class in mutLBSgeneDB | C: This gene just belongs to mutLBSgenes. |
Gene ontology having evidence of Inferred from Direct Assay (IDA) from Entrez |
GO ID | GO Term | PubMed ID | GO:0000381 | regulation of alternative mRNA splicing, via spliceosome | 12165565 | GO:0000398 | mRNA splicing, via spliceosome | 9546399 | GO:0048026 | positive regulation of mRNA splicing, via spliceosome | 15009664 |
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Ligand binding site mutations for TRA2B |
Lollipop-style diagram of mutations at LBS in amino-acid sequence. We represented ligand binding site mutations only. (You can see big image via clicking.) : non-synonymous mutation on LBS, Circle size denotes number of samples. |
Cancer type specific mutLBS sorted by frequency |
LBS | AAchange of nsSNV | Cancer type | # samples | R187 | R187C | COAD | 2 | R111 | R111L | COAD | 1 | R111 | R111P | HNSC | 1 | R188 | R188S | LUAD | 1 | R159 | R157C | STAD | 1 | F161 | F161S | STAD | 1 | R187 | R187C | UCEC | 1 |
cf) Cancer type abbreviation. BLCA: Bladder urothelial carcinoma, BRCA: Breast invasive carcinoma, CESC: Cervical squamous cell carcinoma and endocervical adenocarcinoma, COAD: Colon adenocarcinoma, GBM: Glioblastoma multiforme, LGG: Brain lower grade glioma, HNSC: Head and neck squamous cell carcinoma, KICH: Kidney chromophobe, KIRC: Kidney renal clear cell carcinoma, KIRP: Kidney renal papillary cell carcinoma, LAML: Acute myeloid leukemia, LUAD: Lung adenocarcinoma, LUSC: Lung squamous cell carcinoma, OV: Ovarian serous cystadenocarcinoma, PAAD: Pancreatic adenocarcinoma, PRAD: Prostate adenocarcinoma, SKCM: Skin cutaneous melanoma, STAD: Stomach adenocarcinoma, THCA: Thyroid carcinoma, UCEC: Uterine corpus endometrial carcinoma. |
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Protein structure related information for TRA2B |
Relative protein structure stability change (ΔΔE) using Mupro 1.1 Mupro score denotes assessment of the effect of mutations on thermodynamic stability. (ΔΔE<0: mutation decreases stability, ΔΔE>0: mutation increases stability) |
: nsSNV at non-LBS: nsSNV at LBS |
nsSNVs sorted by the relative stability change of protein structure by each mutation Blue: mutations of positive stability change. and red : the most recurrent mutation for this gene. |
LBS | AAchange of nsSNV | Relative stability change | F161 | F161S | -1.3636754 | R187 | R187C | -1.2303642 | R159 | R157C | -0.94758487 | R111 | R111P | -0.5256912 | R188 | R188S | -0.50498258 | R111 | R111L | -0.095115897 |
(MuPro1.1: Jianlin Cheng et al., Prediction of Protein Stability Changes for Single-Site Mutations Using Support Vector Machines, PROTEINS: Structure, Function, and Bioinformatics. 2006, 62:1125-1132) |
Structure image for TRA2B from PDB |
PDB ID | PDB title | PDB structure | 2CQC | Solution Structure of the RNA recognition motif in Arginine/serine-rich splicing factor 10 |
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Differential gene expression and gene-gene network for TRA2B |
Differential gene expression between mutated and non-mutated LBS samples in all 16 major cancer types |
Differential co-expressed gene network based on protein-protein interaction data (CePIN) |
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Phenotype information for TRA2B |
Gene level disease information (DisGeNet) |
Disease ID | Disease name | # PubMed | Association type |
Mutation level pathogenic information (ClinVar annotation) |
Allele ID | AA change | Clinical significance | Origin | Phenotype IDs |
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Pharmacological information for TRA2B |
Gene expression profile of anticancer drug treated cell-lines (CCLE) Heatmap showing the correlation between gene expression and drug response across all the cell-lines. We chose the top 20 among 138 drugs.We used Pearson's correlation coefficient. |
Drug information targeting mutLBSgene (Approved drugs only) |
Drug status | DrugBank ID | Name | Type | Drug structure |
Gene-centered ligand-gene interaction network |
Ligands binding to mutated ligand binding site of TRA2B go to BioLip |
Ligand ID | Ligand short name | Ligand long name | PDB ID | PDB name | mutLBS | NUC | Nucleic Acids | 2rra | A | R111 F161 R187 R188 | NUC | Nucleic Acids | 2kxn | B | R111 R159 F161 R187 R188 |
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Conservation information for LBS of TRA2B |
Multiple alignments for P62995 in multiple species |
LBS | AA sequence | # species | Species | D192 | RRIRVDFSITK | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | F123 | CCLGVFGLSLY | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | F161 | RRSRGFAFVYF | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | F163 | SRGFAFVYFEN | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | F193 | RIRVDFSITKR | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | G124 | CLGVFGLSLYT | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | G160 | SRRSRGFAFVY | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | H24 | RSGSAHGSGKS | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | I149 | IADVSIVYDQQ | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | I189 | LDGRRIRVDFS | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | I195 | RVDFSITKRPH | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | K197 | DFSITKRPHTP | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | P199 | SITKRPHTPTP | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | Q153 | SIVYDQQSRRS | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R111 | RHVGNRANPDP | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R159 | QSRRSRGFAFV | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R187 | MELDGRRIRVD | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R188 | ELDGRRIRVDF | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R190 | DGRRIRVDFSI | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | R198 | FSITKRPHTPT | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | S148 | PIADVSIVYDQ | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | S194 | IRVDFSITKRP | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | T196 | VDFSITKRPHT | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | V150 | ADVSIVYDQQS | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus | Y165 | GFAFVYFENVD | 4 | Homo sapiens, Bos taurus, Mus musculus, Rattus norvegicus |
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