Aliases for TNIP3 Gene

Aliases for TNIP3 Gene

  • TNFAIP3 Interacting Protein 3 2 3 5
  • ABIN-3 2 3 4
  • LIND 2 3 4
  • A20-Binding Inhibitor Of NF-Kappa-B Activation 3 3 4
  • TNFAIP3-Interacting Protein 3 3 4
  • Listeria-Induced Gene Protein 3 4
  • TNFAIP3-Interacting Protein 3 Beta 3
  • Listeria Induced 3
  • ABIN-3 Beta 3
  • TNIP3 Beta 3
  • FLJ21162 2
  • TNIP3 5
  • ABIN3 4

External Ids for TNIP3 Gene

Previous GeneCards Identifiers for TNIP3 Gene

  • GC04M122332
  • GC04M122445
  • GC04M122511
  • GC04M122410
  • GC04M122272
  • GC04M122052
  • GC04M117779

Summaries for TNIP3 Gene

GeneCards Summary for TNIP3 Gene

TNIP3 (TNFAIP3 Interacting Protein 3) is a Protein Coding gene. Diseases associated with TNIP3 include Inflammatory Bowel Disease 2. Among its related pathways are Immune response IL-23 signaling pathway and Deubiquitination. Gene Ontology (GO) annotations related to this gene include polyubiquitin modification-dependent protein binding. An important paralog of this gene is TNIP1.

UniProtKB/Swiss-Prot Summary for TNIP3 Gene

  • Binds to zinc finger protein TNFAIP3 and inhibits NF-kappa-B activation induced by tumor necrosis factor, Toll-like receptor 4 (TLR4), interleukin-1 and 12-O-tetradecanoylphorbol-13-acetate. Overexpression inhibits NF-kappa-B-dependent gene expression in response to lipopolysaccharide at a level downstream of TRAF6 and upstream of IKBKB. NF-kappa-B inhibition is independent of TNFAIP3 binding.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TNIP3 Gene

Genomics for TNIP3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TNIP3 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
GH04J121228 Promoter/Enhancer 0.9 Ensembl dbSUPER 250.7 +0.3 308 0.6 CTCF NFATC1 ATF2 GLIS1 ZBED1 ARID3A RUNX3 RELB TNIP3 RNU6-948P RF00026-793 NDNF
GH04J121227 Enhancer 0.7 ENCODE dbSUPER 250.7 -0.1 -72 0.2 CTCF NFATC1 ATF2 ZBED1 ARID3A RUNX3 RELB TNIP3 lnc-EXOSC9-2 QRFPR
GH04J121225 Enhancer 0.6 Ensembl dbSUPER 250.7 +1.3 1308 1 ZIC2 TCF7L2 GLIS1 ZNF121 TNIP3 RNU6-948P RF00026-793 NDNF
GH04J121164 Promoter 0.3 EPDnew 260.2 +63.3 63268 0.1 TNIP3 RNU6-948P NDNF HSALNG0036799 RF00026-793
GH04J121153 Promoter/Enhancer 1.6 FANTOM5 Ensembl ENCODE CraniofacialAtlas 27.6 +72.2 72180 4.3 ZNF600 JUND KLF9 CBFB NFE2 ZBTB48 ZNF189 ETV1 BATF MAFK TNIP3 RNU6-948P NDNF HSALNG0036799 HSALNG0036798
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TNIP3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TNIP3

Top Transcription factor binding sites by QIAGEN in the TNIP3 gene promoter:
  • AML1a
  • C/EBPbeta
  • Evi-1
  • FOXD3
  • FOXL1
  • Nkx2-2
  • Nkx6-1
  • Pbx1a

Genomic Locations for TNIP3 Gene

Latest Assembly
chr4:121,131,408-121,227,609
(GRCh38/hg38)
Size:
96,202 bases
Orientation:
Minus strand

Previous Assembly
chr4:122,052,563-122,148,638
(GRCh37/hg19 by Entrez Gene)
Size:
96,076 bases
Orientation:
Minus strand

chr4:122,052,563-122,148,621
(GRCh37/hg19 by Ensembl)
Size:
96,059 bases
Orientation:
Minus strand

Genomic View for TNIP3 Gene

Genes around TNIP3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TNIP3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TNIP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TNIP3 Gene

Proteins for TNIP3 Gene

  • Protein details for TNIP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96KP6-TNIP3_HUMAN
    Recommended name:
    TNFAIP3-interacting protein 3
    Protein Accession:
    Q96KP6
    Secondary Accessions:
    • A1A574
    • A8K2Z4
    • B4DVF5
    • B4E023
    • Q96PQ3
    • Q9H780

    Protein attributes for TNIP3 Gene

    Size:
    325 amino acids
    Molecular mass:
    38943 Da
    Quaternary structure:
    • Interacts with TNFAIP3. Interacts with polyubiquitin.
    SequenceCaution:
    • Sequence=BAB15018.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=BAB15018.1; Type=Frameshift; Evidence={ECO:0000305}; Sequence=CAC85929.1; Type=Frameshift; Evidence={ECO:0000305};

    Alternative splice isoforms for TNIP3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TNIP3 Gene

Post-translational modifications for TNIP3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for TNIP3 Gene

Domains & Families for TNIP3 Gene

Gene Families for TNIP3 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for TNIP3 Gene

InterPro:

Suggested Antigen Peptide Sequences for TNIP3 Gene

GenScript: Design optimal peptide antigens:
  • TNFAIP3-interacting protein 3 beta (A5HU65_HUMAN)
  • cDNA FLJ55864, highly similar to TNFAIP3-interacting protein 3 (B4DVF5_HUMAN)
  • cDNA FLJ56275, highly similar to TNFAIP3-interacting protein 3 (B4E023_HUMAN)
  • Listeria-induced gene protein (TNIP3_HUMAN)
genes like me logo Genes that share domains with TNIP3: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for TNIP3 Gene

Function for TNIP3 Gene

Molecular function for TNIP3 Gene

UniProtKB/Swiss-Prot Function:
Binds to zinc finger protein TNFAIP3 and inhibits NF-kappa-B activation induced by tumor necrosis factor, Toll-like receptor 4 (TLR4), interleukin-1 and 12-O-tetradecanoylphorbol-13-acetate. Overexpression inhibits NF-kappa-B-dependent gene expression in response to lipopolysaccharide at a level downstream of TRAF6 and upstream of IKBKB. NF-kappa-B inhibition is independent of TNFAIP3 binding.
UniProtKB/Swiss-Prot Induction:
By Listeria infection. Expression is slightly down-regulated by dexamethasone and slightly up-regulated by IL-10. Strongly induced mRNA and protein expression by lipopolysaccharide.

Phenotypes From GWAS Catalog for TNIP3 Gene

Gene Ontology (GO) - Molecular Function for TNIP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0031593 polyubiquitin modification-dependent protein binding IBA,IDA 18212736
genes like me logo Genes that share ontologies with TNIP3: view
genes like me logo Genes that share phenotypes with TNIP3: view

Animal Models for TNIP3 Gene

MGI Knock Outs for TNIP3:

miRNA for TNIP3 Gene

miRTarBase miRNAs that target TNIP3

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TNIP3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for TNIP3 Gene

Localization for TNIP3 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 TNIP3 gene
Compartment Confidence
cytosol 4
nucleus 3
extracellular 2
plasma membrane 1
cytoskeleton 1
mitochondrion 1
endosome 1
lysosome 1
golgi apparatus 1

Gene Ontology (GO) - Cellular Components for TNIP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with TNIP3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Subcellular locations from the Human Protein Atlas (HPA) for TNIP3 Gene

Pathways & Interactions for TNIP3 Gene

genes like me logo Genes that share pathways with TNIP3: view

Pathways by source for TNIP3 Gene

Gene Ontology (GO) - Biological Process for TNIP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002756 MyD88-independent toll-like receptor signaling pathway IDA 17088249
GO:0006954 inflammatory response IEA --
GO:0016579 protein deubiquitination TAS --
GO:0034142 toll-like receptor 4 signaling pathway IDA 17088249
GO:0043124 negative regulation of I-kappaB kinase/NF-kappaB signaling IEA,IDA 17088249
genes like me logo Genes that share ontologies with TNIP3: view

No data available for SIGNOR curated interactions for TNIP3 Gene

Drugs & Compounds for TNIP3 Gene

No Compound Related Data Available

Transcripts for TNIP3 Gene

mRNA/cDNA for TNIP3 Gene

3 REFSEQ mRNAs :
11 NCBI additional mRNA sequence :
7 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TNIP3

Alternative Splicing Database (ASD) splice patterns (SP) for TNIP3 Gene

No ASD Table

Relevant External Links for TNIP3 Gene

GeneLoc Exon Structure for
TNIP3

Expression for TNIP3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TNIP3 Gene

mRNA differential expression in normal tissues according to GTEx for TNIP3 Gene

This gene is overexpressed in Lung (x6.6).

Protein differential expression in normal tissues from HIPED for TNIP3 Gene

This gene is overexpressed in Pancreatic juice (67.9).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TNIP3 Gene



Protein tissue co-expression partners for TNIP3 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TNIP3

SOURCE GeneReport for Unigene cluster for TNIP3 Gene:

Hs.208206

mRNA Expression by UniProt/SwissProt for TNIP3 Gene:

Q96KP6-TNIP3_HUMAN
Tissue specificity: Highly expressed in lung, lymph node, thymus and fetal liver. Expressed at lower levels in bone marrow, brain, kidney, spleen, leukocytes and tonsils. Could be detected in heart, salivary gland, adrenal gland, pancreas, ovary and fetal brain. High levels detected in liver, colon, small intestine, muscle, stomach, testis, placenta, thyroid, uterus, prostate, skin and PBL.

Evidence on tissue expression from TISSUES for TNIP3 Gene

  • Blood(4.3)
genes like me logo Genes that share expression patterns with TNIP3: view

Primer products for research

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Phenotype-based relationships between genes and organs from Gene ORGANizer for TNIP3 Gene

Orthologs for TNIP3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TNIP3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia TNIP3 29 30
  • 99.47 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia TNIP3 29 30
  • 85.86 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia LOC100298642 29
  • 84.57 (n)
TNIP3 30
  • 67 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia Tnip3 29 16 30
  • 75.19 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Tnip3 29
  • 71.27 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia TNIP3 30
  • 52 (a)
OneToOne
Chicken
(Gallus gallus)
Aves TNIP3 29 30
  • 58.59 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia TNIP3 30
  • 47 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia tnip3 29
  • 59.47 (n)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 30
  • 16 (a)
OneToMany
Species where no ortholog for TNIP3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • Fruit Fly (Drosophila melanogaster)
  • 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)
  • Oppossum (Monodelphis domestica)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • 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)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)
  • Zebrafish (Danio rerio)

Evolution for TNIP3 Gene

ENSEMBL:
Gene Tree for TNIP3 (if available)
TreeFam:
Gene Tree for TNIP3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TNIP3: view image
Alliance of Genome Resources:
Additional Orthologs for TNIP3

Paralogs for TNIP3 Gene

Paralogs for TNIP3 Gene

(2) SIMAP similar genes for TNIP3 Gene using alignment to 3 proteins:

  • TNIP3_HUMAN
  • A5HU65_HUMAN
  • H0Y9J7_HUMAN
genes like me logo Genes that share paralogs with TNIP3: view

Variants for TNIP3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TNIP3 Gene

SNP ID Clinical significance and condition Chr 04 pos Variation AA Info Type
rs10000692 -- p.Lys99Glu

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for TNIP3 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for TNIP3 Gene

Variant ID Type Subtype PubMed ID
esv3564539 CNV deletion 23714750
nsv4492 CNV insertion 18451855

Variation tolerance for TNIP3 Gene

Residual Variation Intolerance Score: 68.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.15; 51.62% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TNIP3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TNIP3
Leiden Open Variation Database (LOVD)
TNIP3

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TNIP3 Gene

Disorders for TNIP3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for TNIP3 Gene - From: COP

Disorder Aliases PubMed IDs
inflammatory bowel disease 2
  • ibd2
- elite association - COSMIC cancer census association via MalaCards
Search TNIP3 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for TNIP3

Human Genome Epidemiology Navigator
(HuGE)
Atlas
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with TNIP3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TNIP3 Gene

Publications for TNIP3 Gene

  1. LIND/ABIN-3 is a novel lipopolysaccharide-inducible inhibitor of NF-kappaB activation. (PMID: 17088249) Wullaert A … Beyaert R (The Journal of biological chemistry 2007) 3 4 22
  2. Two novel genes FIND and LIND differentially expressed in deactivated and Listeria-infected human macrophages. (PMID: 11345586) Staege H … Schaffner A (Immunogenetics 2001) 2 3 4
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 40
  4. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PMID: 20628086) Bailey SD … DREAM investigators (Diabetes care 2010) 3 40
  5. Ubiquitin binding mediates the NF-kappaB inhibitory potential of ABIN proteins. (PMID: 18212736) Wagner S … Beyaert R (Oncogene 2008) 3 4

Products for TNIP3 Gene

Sources for TNIP3 Gene