Aliases for TXNL4B Gene

Aliases for TXNL4B Gene

  • Thioredoxin Like 4B 2 3 5
  • DLP 2 3 4
  • Thioredoxin-Like Protein 4B 3 4
  • Dim1-Like Protein 3 4
  • Dim2 2 3
  • Thioredoxin-Like 4B 2
  • FLJ20511 2
  • TXNL4B 5
  • DIM2 4

External Ids for TXNL4B Gene

Previous GeneCards Identifiers for TXNL4B Gene

  • GC16M070677
  • GC16M072118
  • GC16M057885

Summaries for TXNL4B Gene

GeneCards Summary for TXNL4B Gene

TXNL4B (Thioredoxin Like 4B) is a Protein Coding gene. Diseases associated with TXNL4B include Anhaptoglobinemia and Epithelial-Stromal Tgfbi Dystrophy. An important paralog of this gene is TXNL4A.

UniProtKB/Swiss-Prot Summary for TXNL4B Gene

  • Essential role in pre-mRNA splicing. Required in cell cycle progression for S/G(2) transition.

Gene Wiki entry for TXNL4B Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TXNL4B Gene

Genomics for TXNL4B Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TXNL4B Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH16J072092 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 605.4 +0.6 630 3.6 SP1 CREB1 GATAD2A PRDM10 REST TFE3 RFX1 SIX5 IKZF1 ZNF692 DHX38 TXNL4B DHODH ATXN1L IST1 AP1G1 HP CMTR2
GH16J072012 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE 26 +80.7 80735 2.2 PRDM10 IKZF1 ZNF692 GABPA ZIC2 EP300 MGA ZBTB20 HMBOX1 EGR1 PKD1L3 TXNL4B HP HPR DHODH DHX38 piR-30361
GH16J072072 Enhancer 1.1 Ensembl ENCODE 12 +21.2 21217 2 CREB1 GATAD2A TEAD4 TFE3 LEF1 IKZF1 NFKBIZ NFRKB RCOR2 MTA2 HPR TXNL4B DHX38 DHODH ENSG00000260252
GH16J072063 Promoter/Enhancer 1.1 EPDnew Ensembl 11.6 +31.8 31830 2 GATAD2A ATF7 TFE3 RCOR2 RBFOX2 RXRB IRF2 SP1 CEBPA FOXK2 HPR TXNL4B DHX38 DHODH MF281447 HP
GH16J073062 Promoter/Enhancer 2.3 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 3.9 -972.8 -972786 9.8 ZNF221 CREB1 GATAD2A ZBTB33 ATF7 TEAD4 PRDM10 ZNF629 TFE3 SOX13 MN297389 DHX38 PMFBP1 ZFHX3 ENSG00000271009 TXNL4B LOC107984814
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TXNL4B on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TXNL4B

Top Transcription factor binding sites by QIAGEN in the TXNL4B gene promoter:
  • NF-kappaB
  • NF-kappaB1
  • p53

Genomic Locations for TXNL4B Gene

Genomic Locations for TXNL4B Gene
chr16:72,044,261-72,094,431
(GRCh38/hg38)
Size:
50,171 bases
Orientation:
Minus strand
chr16:72,078,188-72,128,330
(GRCh37/hg19)
Size:
50,143 bases
Orientation:
Minus strand

Genomic View for TXNL4B Gene

Genes around TXNL4B on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TXNL4B Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TXNL4B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TXNL4B Gene

Proteins for TXNL4B Gene

  • Protein details for TXNL4B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9NX01-TXN4B_HUMAN
    Recommended name:
    Thioredoxin-like protein 4B
    Protein Accession:
    Q9NX01
    Secondary Accessions:
    • D3DWS6

    Protein attributes for TXNL4B Gene

    Size:
    149 amino acids
    Molecular mass:
    17015 Da
    Quaternary structure:
    • Homodimer. Interacts with the U5-102 kDa protein subunit of the spliceosome.

    Three dimensional structures from OCA and Proteopedia for TXNL4B Gene

neXtProt entry for TXNL4B Gene

Post-translational modifications for TXNL4B Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TXNL4B Gene

Domains & Families for TXNL4B Gene

Gene Families for TXNL4B Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for TXNL4B Gene

InterPro:
Blocks:
  • Pre-mRNA splicing protein
ProtoNet:

Suggested Antigen Peptide Sequences for TXNL4B Gene

GenScript: Design optimal peptide antigens:
  • Dim1-like protein (TXN4B_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9NX01

UniProtKB/Swiss-Prot:

TXN4B_HUMAN :
  • Belongs to the DIM1 family.
Family:
  • Belongs to the DIM1 family.
genes like me logo Genes that share domains with TXNL4B: view

Function for TXNL4B Gene

Molecular function for TXNL4B Gene

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

Phenotypes From GWAS Catalog for TXNL4B Gene

Gene Ontology (GO) - Molecular Function for TXNL4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with TXNL4B: view
genes like me logo Genes that share phenotypes with TXNL4B: view

Animal Model Products

  • Taconic Biosciences Mouse Models for TXNL4B

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TXNL4B

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TXNL4B Gene

Localization for TXNL4B Gene

Subcellular locations from UniProtKB/Swiss-Prot for TXNL4B Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TXNL4B gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 2
extracellular 2
cytoskeleton 2
mitochondrion 2
peroxisome 1
endoplasmic reticulum 1
endosome 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (3)
  • Cytosol (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TXNL4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005682 U5 snRNP IBA 21873635
GO:0005829 cytosol IDA --
GO:0046540 U4/U6 x U5 tri-snRNP complex IBA 21873635
genes like me logo Genes that share ontologies with TXNL4B: view

Pathways & Interactions for TXNL4B Gene

PathCards logo

SuperPathways for TXNL4B Gene

No Data Available

Gene Ontology (GO) - Biological Process for TXNL4B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000398 mRNA splicing, via spliceosome IEA --
GO:0006397 mRNA processing IEA --
GO:0007049 cell cycle IEA --
GO:0008380 RNA splicing IEA --
genes like me logo Genes that share ontologies with TXNL4B: view

No data available for Pathways by source and SIGNOR curated interactions for TXNL4B Gene

Drugs & Compounds for TXNL4B Gene

No Compound Related Data Available

Transcripts for TXNL4B Gene

mRNA/cDNA for TXNL4B Gene

5 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
6 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TXNL4B

Alternative Splicing Database (ASD) splice patterns (SP) for TXNL4B Gene

No ASD Table

Relevant External Links for TXNL4B Gene

GeneLoc Exon Structure for
TXNL4B

Expression for TXNL4B Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TXNL4B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for TXNL4B Gene

This gene is overexpressed in Testis (20.1), Ovary (11.2), Salivary gland (8.3), Fetal testis (8.0), Stomach (7.3), and Esophagus (6.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for TXNL4B Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TXNL4B

SOURCE GeneReport for Unigene cluster for TXNL4B Gene:

Hs.134406

Evidence on tissue expression from TISSUES for TXNL4B Gene

  • Nervous system(4.1)
  • Skin(2.7)
  • Blood(2.5)
  • Muscle(2.5)
  • Kidney(2.4)
  • Heart(2.4)
  • Liver(2.4)
  • Intestine(2.1)
genes like me logo Genes that share expression patterns with TXNL4B: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TXNL4B Gene

Orthologs for TXNL4B Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for TXNL4B Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia TXNL4B 30 31
  • 100 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia TXNL4B 31
  • 97 (a)
OneToOne
LOC612963 30
  • 93.51 (n)
Oppossum
(Monodelphis domestica)
Mammalia TXNL4B 31
  • 95 (a)
OneToOne
Cow
(Bos Taurus)
Mammalia TXNL4B 30 31
  • 92.39 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Txnl4b 30
  • 88.81 (n)
Mouse
(Mus musculus)
Mammalia Txnl4b 30 17 31
  • 87.92 (n)
OneToOne
Chicken
(Gallus gallus)
Aves TXNL4B 30 31
  • 81.66 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia TXNL4B 31
  • 92 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia txnl4b 30
  • 78.97 (n)
Str.14990 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.7085 30
Zebrafish
(Danio rerio)
Actinopterygii txnl4b 30 31
  • 77.4 (n)
OneToOne
Dr.14498 30
Fruit Fly
(Drosophila melanogaster)
Insecta Dim1 31
  • 35 (a)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea Y54G2A.75 31
  • 37 (a)
OneToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DIB1 31
  • 33 (a)
OneToMany
Thale Cress
(Arabidopsis thaliana)
eudicotyledons AT3G24730 30
  • 61.74 (n)
Rice
(Oryza sativa)
Liliopsida Os11g0297900 30
  • 59.46 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.9800 31
  • 36 (a)
OneToMany
Species where no ortholog for TXNL4B was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Platypus (Ornithorhynchus anatinus)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for TXNL4B Gene

ENSEMBL:
Gene Tree for TXNL4B (if available)
TreeFam:
Gene Tree for TXNL4B (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TXNL4B: view image

Paralogs for TXNL4B Gene

Paralogs for TXNL4B Gene

(1) SIMAP similar genes for TXNL4B Gene using alignment to 5 proteins:

  • TXN4B_HUMAN
  • H3BN11_HUMAN
  • H3BQ09_HUMAN
  • H3BUL8_HUMAN
  • L8E8E2_HUMAN
genes like me logo Genes that share paralogs with TXNL4B: view

Variants for TXNL4B Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TXNL4B Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
708606 Benign: not provided 72,060,626(-) C/T SYNONYMOUS_VARIANT
717956 Benign: not provided 72,056,163(-) C/A MISSENSE_VARIANT
726169 Likely Benign: not provided 72,060,752(-) T/C SYNONYMOUS_VARIANT
734198 Likely Benign: not provided 72,060,377(-) T/G SYNONYMOUS_VARIANT
735740 Likely Benign: not provided 72,060,428(-) A/G SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for TXNL4B Gene

Structural Variations from Database of Genomic Variants (DGV) for TXNL4B Gene

Variant ID Type Subtype PubMed ID
dgv3017n100 CNV gain 25217958
esv2714683 CNV deletion 23290073
esv2758654 CNV gain 17122850
esv3306441 CNV mobile element insertion 20981092
esv3441283 CNV insertion 20981092
nsv428329 CNV gain 18775914
nsv7285 OTHER inversion 18451855
nsv833273 CNV loss 17160897

Variation tolerance for TXNL4B Gene

Residual Variation Intolerance Score: 57.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.58; 30.42% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TXNL4B Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TXNL4B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TXNL4B Gene

Disorders for TXNL4B Gene

MalaCards: The human disease database

(5) MalaCards diseases for TXNL4B Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
anhaptoglobinemia
  • ahp
epithelial-stromal tgfbi dystrophy
lattice corneal dystrophy
  • familial amyloid neuropathy, finnish type
atrophy of prostate
suppression of tumorigenicity 12
  • st12
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with TXNL4B: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TXNL4B Gene

Publications for TXNL4B Gene

  1. Biochemical characterization and crystal structure of a Dim1 family associated protein: Dim2. (PMID: 16142897) Simeoni F … Divita G (Biochemistry 2005) 3 4 23
  2. DLP, a novel Dim1 family protein implicated in pre-mRNA splicing and cell cycle progression. (PMID: 15161931) Sun X … Shang Y (The Journal of biological chemistry 2004) 2 3 4
  3. Overproduction, purification, crystallization and preliminary X-ray diffraction studies of the human spliceosomal protein TXNL4B. (PMID: 16511018) Jin T … Zhang YZ (Acta crystallographica. Section F, Structural biology and crystallization communications 2005) 3 23
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4

Products for TXNL4B Gene

  • Signalway Proteins for TXNL4B

Sources for TXNL4B Gene