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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TXNL4B Gene

protein-coding   GIFtS: 48
GCID: GC16M072118

Thioredoxin-Like 4B

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
Thioredoxin-Like 4B1 2
DLP2 3
Dim1-Like Protein2 3
Dim22
Thioredoxin-Like Protein 4B2
DIM23

External Ids:    HGNC: 260411   Entrez Gene: 549572   Ensembl: ENSG000001408307   UniProtKB: Q9NX013   

Export aliases for TXNL4B gene to outside databases

Previous GC identifers: GC16M070677 GC16M057885


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for TXNL4B Gene: 
TXNL4B (thioredoxin-like 4B) is a protein-coding gene. Diseases associated with TXNL4B include hypercholesterolemia, and herpes simplex. An important paralog of this gene is TXNL4A.

UniProtKB/Swiss-Prot: TXN4B_HUMAN, Q9NX01
Function: Essential role in pre-mRNA splicing. Required in cell cycle progression for S/G(2) transition

Gene Wiki entry for TXNL4B Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000016.9  NC_018927.2  NT_010498.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TXNL4B gene promoter:
         p53   NF-kappaB1   NF-kappaB   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTXNL4B promoter sequence
   Search SABiosciences Chromatin IP Primers for TXNL4B

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TXNL4B


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 16q22.2   Ensembl cytogenetic band:  16q22.2   HGNC cytogenetic band: 16q22.2

TXNL4B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TXNL4B gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16M072118:  view genomic region     (about GC identifiers)

Start:
72,078,188 bp from pter      End:
72,128,330 bp from pter
Size:
50,143 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: TXN4B_HUMAN, Q9NX01 (See protein sequence)
Recommended Name: Thioredoxin-like protein 4B  
Size: 149 amino acids; 17015 Da
Subunit: Homodimer. Interacts with the U5-102 kDa protein subunit of the spliceosome
Subcellular location: Nucleus
3 PDB 3D structures from and Proteopedia for TXNL4B:
1XBS (3D)        3GIX (3D)        4IN0 (3D)    
Secondary accessions: D3DWS6

Explore the universe of human proteins at neXtProt for TXNL4B: NX_Q9NX01

Explore proteomics data for TXNL4B at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9NX01

  • TXNL4B Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TXNL4B Protein Expression
    REFSEQ proteins (3 alternative transcripts): 
    NP_001135789.1  NP_001135790.1  NP_060323.1  

    ENSEMBL proteins: 
     ENSP00000454635   ENSP00000268483   ENSP00000392310   ENSP00000455550   ENSP00000457699  
     ENSP00000408130  

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    Sino Biological Recombinant Protein for TXNL4B
    Browse Sino Biological Cell Lysates 
    ProSpec Recombinant Protein for TXNL4B
    Cloud-Clone Corp. Proteins for TXNL4B 

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005681spliceosomal complex IEA--

    TXNL4B for ontologies           About GeneDecksing



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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    2 InterPro protein domains:
     IPR004123 mRNA_splic_U5
     IPR012336 Thioredoxin-like_fold

    Graphical View of Domain Structure for InterPro Entry Q9NX01

    ProtoNet protein and cluster: Q9NX01

    1 Blocks protein domain: IPB004123 Pre-mRNA splicing protein

    UniProtKB/Swiss-Prot: TXN4B_HUMAN, Q9NX01
    Similarity: Belongs to the DIM1 family


    TXNL4B for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TXN4B_HUMAN, Q9NX01
    Function: Essential role in pre-mRNA splicing. Required in cell cycle progression for S/G(2) transition

    Animal Models:

       inGenious Targeting Laboratory - Custom generated mouse model solutions for TXNL4B 
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for TXNL4B 
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    8 QIAGEN miScript miRNA Assays for microRNAs that regulate TXNL4B:
    hsa-miR-576-3p hsa-miR-4254 hsa-miR-2110 hsa-miR-508-5p hsa-miR-1207-3p hsa-miR-1193 hsa-miR-3921 hsa-miR-4267
    SwitchGear 3'UTR luciferase reporter plasmidTXNL4B 3' UTR sequence
    Inhib. RNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TXNL4B


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section




    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for TXNL4B

    STRING Interaction Network Preview (showing 5 interactants - click image to see 12)

    5/12 Interacting proteins for TXNL4B (Q9NX013 ENSP000002684834) via UniProtKB, MINT, STRING, and/or I2D (see all 12)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PRPF6O949063, ENSP000002660794I2D: score=2 STRING: ENSP00000266079
    AMPHENSP000003486024STRING: ENSP00000348602
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    SNRPD2ENSP000003423744STRING: ENSP00000342374
    PRPF8ENSP000003043504STRING: ENSP00000304350
    About this table

    Gene Ontology (GO): 4 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006397mRNA processing IEA--
    GO:0007067mitosis IEA--
    GO:0008380RNA splicing IEA--
    GO:0045454cell redox homeostasis ----

    TXNL4B for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TXNL4B (TXN4B)

    Search CenterWatch for drugs/clinical trials and news about TXNL4B / TXN4B

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TXNL4B gene (3 alternative transcripts): 
    NM_001142317.1  NM_001142318.1  NM_017853.2  

    Unigene Cluster for TXNL4B:

    Thioredoxin-like 4B
    Hs.134406  [show with all ESTs]
    Unigene Representative Sequence: NM_017853
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000562153 ENST00000268483(uc010cgl.2 uc002fca.3 uc010vmo.2)
    ENST00000426362 ENST00000565171 ENST00000569767 ENST00000423037(uc010vmn.2)

    miRNA
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    8 QIAGEN miScript miRNA Assays for microRNAs that regulate TXNL4B:
    hsa-miR-576-3p hsa-miR-4254 hsa-miR-2110 hsa-miR-508-5p hsa-miR-1207-3p hsa-miR-1193 hsa-miR-3921 hsa-miR-4267
    SwitchGear 3'UTR luciferase reporter plasmidTXNL4B 3' UTR sequence
    Inhib. RNA
    Products:
         
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                         Customized lentivirus expression plasmids for stable overexpression of TXNL4B 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat TXNL4B
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat TXNL4B

    Additional mRNA sequence: 

    AK000518.1 AK222889.1 AK308891.1 AY566808.1 BC009646.1 CR457240.1 

    12 DOTS entries:

    DT.442091  DT.100758093  DT.120676175  DT.120676237  DT.91893224  DT.100743517  DT.120676186  DT.91871062 
    DT.95164976  DT.97841859  DT.100786705  DT.92028303 

    24/125 AceView cDNA sequences (see all 125):

    CD628675 BE463736 F12366 BU631267 BP345992 AA805312 AA904653 CR617379 
    AI075103 BQ671143 BE409023 BF055190 AI052723 AI767304 AI279309 BQ007095 
    BE384851 AI810585 BM916990 BE018752 BU172712 CD517462 BM700475 BF593392 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TXNL4B expression in normal human tissues (normalized intensities)      TXNL4B embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AACTCTGGAC
    TXNL4B Expression
    About this image


    TXNL4B expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/2 selected tissues (see all 2) fully expand
     
     Kidney (Urinary System)
             Presumptive Podocytes Podocyte Layer
     
     Blood (Hematopoietic System)
             platelets   

    See TXNL4B Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TXNL4B

    SOURCE GeneReport for Unigene cluster: Hs.134406
        SABiosciences Expression via Pathway-Focused PCR Arrays including TXNL4B: 
              Necrosis in human mouse rat
              Stress & Toxicity PathwayFinder in human mouse rat
              Molecular Toxicology PathwayFinder 384HT in human mouse rat
              Cell Death PathwayFinder in human mouse rat

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TXNL4B

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for TXNL4B gene from 9/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Txnl4b1 , 5 thioredoxin-like 4B1, 5 87.92(n)1
    97.32(a)1
      8 (57.10 cM)5
    2347231  NM_175646.31  NP_783577.21 
     1095658925 
    chicken
    (Gallus gallus)
    Aves TXNL4B1 thioredoxin-like 4B 81.66(n)
    89.26(a)
      418396  XM_003640461.1  XP_003640509.1 
    lizard
    (Anolis carolinensis)
    Reptilia TXNL4B6
    Uncharacterized protein
    92(a)
    1 ↔ 1
    AAWZ02038071(8677-9498)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.70852 Xenopus laevis transcribed sequence with strong similarity more 81.39(n)    CA972134.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.144982 Transcribed sequence with moderate similarity to protein more 77.34(n)    57060579 
    fruit fly
    (Drosophila melanogaster)
    Insecta Dim16
    Dim1
    35(a)
    1 → many
    2L(4403251-4403955)
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes DIB16
    17-kDa component of the U4/U6aU5 tri-snRNP, plays ...
    33(a)
    1 → many
    XVI(704225-704656)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT3G247301 mRNA splicing factor, thioredoxin-like U5 snRNP 61.74(n)
    60.4(a)
      822071  NM_113385.2  NP_189117.2 
    rice
    (Oryza sativa)
    Liliopsida Os11g02979001 hypothetical protein 59.46(n)
    60.14(a)
      4350321  NM_001074259.1  NP_001067727.1 


    ENSEMBL Gene Tree for TXNL4B (if available)
    TreeFam Gene Tree for TXNL4B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TXNL4B gene
    TXNL4A2  
    1 SIMAP similar gene for TXNL4B using alignment to 5 protein entries:     TXN4B_HUMAN (see all proteins):
    TXNL4A

    TXNL4B for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/213 SNPs in TXNL4B are shown (see all 213)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs740298241,2
    C,F--72118280(+) GAAAGG/CTTCCT 3 -- int12Minor allele frequency- C:0.08WA 120
    rs99410871,2
    C,F,A,H--72118324(+) AAACCG/ACCTTG 3 -- int125Minor allele frequency- A:0.39NS EA NA WA 2494
    rs1930592241,2
    C--72118336(+) TCCAAA/TCCTTA 3 -- int10--------
    rs1430821301,2
    --72118391(+) GCATAA/GCCAAT 3 -- int10--------
    rs614040391,2
    C,F--72118418(+) TGTGCG/AGTCCA 3 -- int12Minor allele frequency- A:0.04NA EA 240
    rs1848495641,2
    --72118469(+) GTTAGC/GGTTAG 3 -- int10--------
    rs25508731,2
    C,H--72118491(+) CCTTTG/ATTAGG 3 -- int16Minor allele frequency- A:0.00NS EA NA 422
    rs1881090881,2
    C--72118522(+) AGGCGC/TGGGCA 3 -- int10--------
    rs1482365251,2
    --72118641(+) AGAAGA/TCATGA 3 -- int10--------
    rs1914474041,2
    --72118659(+) GCACAC/TGCAGG 3 -- int10--------

    HapMap Linkage Disequilibrium report for TXNL4B (72078188 - 72128330 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 6 variations for TXNL4B:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2714683CNV Deletion23290073
    esv270717CNV Insertion20981092
    nsv833273CNV Loss17160897
    nsv428329CNV Gain18775914
    dgv898e1CNV Complex17122850
    nsv7285OTHER Inversion18451855

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    3 diseases for TXNL4B:    About MalaCards
    hypercholesterolemia    herpes simplex    osteosarcoma


    TXNL4B for disorders           About GeneDecksing


    Export disorders for TXNL4B gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for TXNL4B gene, integrated from 9 sources (see all 19):
    (articles sorted by number of sources associating them with TXNL4B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. DLP, a novel Dim1 family protein implicated in pre-mRNA splicing and cell cycle progression. (PubMed id 15161931)1, 2, 3 Sun X.... Shang Y. (2004)
    2. Biochemical characterization and crystal structure of a Dim1 family associated protein: Dim2. (PubMed id 16142897)1, 2, 9 Simeoni F.... Divita G. (2005)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    5. Overproduction, purification, crystallization and preliminary X-ray diffraction studies of the human spliceosomal protein TXNL4B. (PubMed id 16511018)1, 9 Jin T....Zhang Y.Z. (2005)
    6. High-resolution crystal structure of human Dim2/TXNL4B . (PubMed id 23519793)1 Jin T....Zhang Y. (2013)
    7. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    8. A protein inventory of human ribosome biogenesis reve als an essential function of exportin 5 in 60S subunit export. (PubMed id 21048991)1 Wild T....Kutay U. (2010)
    9. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
    10. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (2008)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 54957 HGNC: 26041 AceView: TXNL4B Ensembl:ENSG00000140830 euGenes: HUgn54957
    ECgene: TXNL4B H-InvDB: TXNL4B

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for TXNL4B Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TXNL4B gene:
    Search GeneIP for patents involving TXNL4B

    GeneCards and IP:
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