This gene is a member of the TAFA family which is composed of five highly homologous genes that encode small secreted proteins. These proteins contain conserved cysteine residues at fixed positions, and are distantly related to MIP-1alpha, a member of the CC-chemokine family. The TAFA proteins are predominantly expressed in specific regions of the brain, and are postulated to f... See more...

Aliases for TAFA4 Gene

Aliases for TAFA4 Gene

  • TAFA Chemokine Like Family Member 4 2 3 5
  • Family With Sequence Similarity 19 Member A4, C-C Motif Chemokine Like 2 3
  • Chemokine-Like Protein TAFA-4 3 4
  • FAM19A4 3 4
  • TAFA-4 2 3
  • Family With Sequence Similarity 19 (Chemokine (C-C Motif)-Like), Member A4 3
  • Protein FAM19A4 3
  • TAFA4 5

External Ids for TAFA4 Gene

Previous HGNC Symbols for TAFA4 Gene

  • FAM19A4

Previous GeneCards Identifiers for TAFA4 Gene

  • GC03M068863

Summaries for TAFA4 Gene

Entrez Gene Summary for TAFA4 Gene

  • This gene is a member of the TAFA family which is composed of five highly homologous genes that encode small secreted proteins. These proteins contain conserved cysteine residues at fixed positions, and are distantly related to MIP-1alpha, a member of the CC-chemokine family. The TAFA proteins are predominantly expressed in specific regions of the brain, and are postulated to function as brain-specific chemokines or neurokines, that act as regulators of immune and nervous cells. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Nov 2011]

GeneCards Summary for TAFA4 Gene

TAFA4 (TAFA Chemokine Like Family Member 4) is a Protein Coding gene. Diseases associated with TAFA4 include Osteogenesis Imperfecta, Type Xiii and Inflammatory Bowel Disease 9. An important paralog of this gene is TAFA2.

UniProtKB/Swiss-Prot Summary for TAFA4 Gene

  • Modulates injury-induced and chemical pain hypersensitivity (By similarity). Ligand of FPR1, can chemoattract macrophages, promote phagocytosis and increase ROS release (PubMed:25109685).

Additional gene information for TAFA4 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TAFA4 Gene

Genomics for TAFA4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for TAFA4 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
GH03J068932 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 600.4 +20.8 20796 1 CTCF POLR2A EZH2 ZNF561 SOX13 RAD21 RNF2 USF1 ZBTB26 MAX TAFA4 RNA5SP135 TAFA1
GH03J068894 Promoter 0.4 EPDnew 610.8 +58.6 58605 0.1 ZFP36 TAFA4 RNA5SP135 TAFA1
GH03J068950 Enhancer 0.3 Ensembl 600.7 -0.9 -904 0.8 SPI1 TAFA4 lnc-ARL6IP5-2 lnc-FAM19A4-3 EOGT
GH03J068972 Enhancer 0.6 Ensembl 5.6 -20.8 -20765 3.5 CTCF TEAD4 ZNF143 REST RAD21 SMC3 MYC ZNF654 GLIS1 YY1 TAFA4 lnc-FAM19A4-3 lnc-ARL6IP5-2 EOGT
GH03J068943 Enhancer 0.4 Ensembl 6.4 +9.4 9396 1 ZNF316 MAFF ZNF384 MAFK TAFA4 RNA5SP135 TAFA1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TAFA4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TAFA4

Genomic Locations for TAFA4 Gene

Genomic Locations for TAFA4 Gene
chr3:68,731,764-68,953,297
(GRCh38/hg38)
Size:
221,534 bases
Orientation:
Minus strand
chr3:68,780,917-68,981,761
(GRCh37/hg19)
Size:
200,845 bases
Orientation:
Minus strand

Genomic View for TAFA4 Gene

Genes around TAFA4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TAFA4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TAFA4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for TAFA4 Gene

Proteins for TAFA4 Gene

  • Protein details for TAFA4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96LR4-TAFA4_HUMAN
    Recommended name:
    Chemokine-like protein TAFA-4
    Protein Accession:
    Q96LR4
    Secondary Accessions:
    • A8MVT2

    Protein attributes for TAFA4 Gene

    Size:
    140 amino acids
    Molecular mass:
    15682 Da
    Quaternary structure:
    No Data Available

neXtProt entry for TAFA4 Gene

Post-translational modifications for TAFA4 Gene

No Post-translational modifications

Other Protein References for TAFA4 Gene

No data available for DME Specific Peptides for TAFA4 Gene

Domains & Families for TAFA4 Gene

Gene Families for TAFA4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Predicted secreted proteins

Protein Domains for TAFA4 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for TAFA4 Gene

GenScript: Design optimal peptide antigens:
  • Chemokine-like protein TAFA-4 (F19A4_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q96LR4

UniProtKB/Swiss-Prot:

TAFA4_HUMAN :
  • Belongs to the TAFA family.
Family:
  • Belongs to the TAFA family.
genes like me logo Genes that share domains with TAFA4: view

Function for TAFA4 Gene

Molecular function for TAFA4 Gene

UniProtKB/Swiss-Prot Function:
Modulates injury-induced and chemical pain hypersensitivity (By similarity). Ligand of FPR1, can chemoattract macrophages, promote phagocytosis and increase ROS release (PubMed:25109685).

Phenotypes From GWAS Catalog for TAFA4 Gene

Gene Ontology (GO) - Molecular Function for TAFA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
GO:0048018 receptor ligand activity IBA,ISS --
genes like me logo Genes that share ontologies with TAFA4: view
genes like me logo Genes that share phenotypes with TAFA4: view

Animal Models for TAFA4 Gene

MGI Knock Outs for TAFA4:

Animal Model Products

  • Taconic Biosciences Mouse Models for TAFA4

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TAFA4

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for TAFA4 Gene

Localization for TAFA4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TAFA4 Gene

Secreted.

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 TAFA4 gene
Compartment Confidence
extracellular 5
plasma membrane 1
cytoskeleton 1
mitochondrion 1
nucleus 1

Gene Ontology (GO) - Cellular Components for TAFA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005615 extracellular space IBA,ISS --
genes like me logo Genes that share ontologies with TAFA4: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for TAFA4 Gene

Pathways & Interactions for TAFA4 Gene

PathCards logo

SuperPathways for TAFA4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for TAFA4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006909 phagocytosis IBA,ISS --
GO:0007165 signal transduction IEA --
GO:0010469 regulation of signaling receptor activity ISS --
GO:0042391 regulation of membrane potential IEA --
GO:0042554 superoxide anion generation ISS --
genes like me logo Genes that share ontologies with TAFA4: view

No data available for Pathways by source and SIGNOR curated interactions for TAFA4 Gene

Drugs & Compounds for TAFA4 Gene

No Compound Related Data Available

Transcripts for TAFA4 Gene

mRNA/cDNA for TAFA4 Gene

2 REFSEQ mRNAs :
4 NCBI additional mRNA sequence :
3 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 TAFA4

Alternative Splicing Database (ASD) splice patterns (SP) for TAFA4 Gene

No ASD Table

Relevant External Links for TAFA4 Gene

GeneLoc Exon Structure for
TAFA4

Expression for TAFA4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TAFA4

SOURCE GeneReport for Unigene cluster for TAFA4 Gene:

Hs.187873

mRNA Expression by UniProt/SwissProt for TAFA4 Gene:

Q96LR4-TAFA4_HUMAN
Tissue specificity: Expressed in brain (PubMed:15028294). Expressed in LPS-stimulated monocytes and macrophages, especially in polarized M1 (PubMed:25109685).

Evidence on tissue expression from TISSUES for TAFA4 Gene

  • Nervous system(4.5)
genes like me logo Genes that share expression patterns with TAFA4: view

Primer Products

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for TAFA4 Gene

Orthologs for TAFA4 Gene

This gene was present in the common ancestor of chordates.

Orthologs for TAFA4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia FAM19A4 30 31
  • 100 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia FAM19A4 31
  • 93 (a)
OneToOne
Dog
(Canis familiaris)
Mammalia FAM19A4 30 31
  • 92.38 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Fam19a4 30 31
  • 88.4 (n)
OneToOne
Tafa4 17
Rat
(Rattus norvegicus)
Mammalia Fam19a4 30
  • 88.15 (n)
Platypus
(Ornithorhynchus anatinus)
Mammalia FAM19A4 31
  • 82 (a)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia FAM19A4 31
  • 78 (a)
OneToOne
Chicken
(Gallus gallus)
Aves FAM19A4 30 31
  • 82.97 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia FAM19A4 31
  • 75 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia fam19a4 30
  • 76.81 (n)
Zebrafish
(Danio rerio)
Actinopterygii fam19a4b 30 31
  • 71.31 (n)
OneToOne
Species where no ortholog for TAFA4 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)
  • 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 Squirt (Ciona savignyi)
  • 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)

Evolution for TAFA4 Gene

ENSEMBL:
Gene Tree for TAFA4 (if available)
TreeFam:
Gene Tree for TAFA4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TAFA4: view image

Paralogs for TAFA4 Gene

Paralogs for TAFA4 Gene

genes like me logo Genes that share paralogs with TAFA4: view

Variants for TAFA4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TAFA4 Gene

SNP ID Clinical significance and condition Chr 03 pos Variation AA Info Type
719249 Benign: not provided 68,733,148(-) C/T SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for TAFA4 Gene

Structural Variations from Database of Genomic Variants (DGV) for TAFA4 Gene

Variant ID Type Subtype PubMed ID
dgv2533n106 CNV deletion 24896259
dgv2534n106 CNV deletion 24896259
esv1011141 CNV insertion 20482838
esv1734354 CNV deletion 17803354
esv2141895 CNV deletion 18987734
esv2504953 CNV deletion 19546169
esv2658323 CNV deletion 23128226
esv2678597 CNV deletion 23128226
esv2725381 CNV deletion 23290073
esv2725382 CNV deletion 23290073
esv2759156 CNV gain 17122850
esv2762332 CNV loss 21179565
esv3305888 CNV mobile element insertion 20981092
esv3357082 CNV insertion 20981092
esv3358 CNV loss 18987735
esv3562029 CNV deletion 23714750
esv3562030 CNV deletion 23714750
esv3568839 CNV loss 25503493
esv3596488 CNV loss 21293372
esv8699 CNV loss 19470904
esv989471 CNV deletion 20482838
nsv1003221 CNV loss 25217958
nsv1014265 CNV loss 25217958
nsv1126151 CNV deletion 24896259
nsv1151466 CNV deletion 26484159
nsv1151544 CNV deletion 26484159
nsv1160944 CNV duplication 26073780
nsv236602 CNV deletion 16902084
nsv525701 CNV gain 19592680
nsv834722 CNV gain 17160897
nsv956303 CNV deletion 24416366

Variation tolerance for TAFA4 Gene

Residual Variation Intolerance Score: 75.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.00; 20.55% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TAFA4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TAFA4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TAFA4 Gene

Disorders for TAFA4 Gene

MalaCards: The human disease database

(6) MalaCards diseases for TAFA4 Gene - From: DISEASES

Disorder Aliases PubMed IDs
osteogenesis imperfecta, type xiii
  • oi13
inflammatory bowel disease 9
  • ibd9
prostatic adenoma
  • adenoma - prostate
neuropathy, hereditary sensory and autonomic, type v
  • indifference to pain, congenital, autosomal recessive
cervix uteri carcinoma in situ
  • carcinoma in situ of cervix
- elite association - COSMIC cancer census association via MalaCards
Search TAFA4 in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with TAFA4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TAFA4 Gene

Publications for TAFA4 Gene

  1. FAM19A4 is a novel cytokine ligand of formyl peptide receptor 1 (FPR1) and is able to promote the migration and phagocytosis of macrophages. (PMID: 25109685) Wang W … Han W (Cellular & molecular immunology 2015) 2 3 4
  2. TAFA: a novel secreted family with conserved cysteine residues and restricted expression in the brain. (PMID: 15028294) Tom Tang Y … Rupp F (Genomics 2004) 2 3 4
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  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. [Detection and analysis of FAM19A4 promoter methylation in cervical exfoliated cells]. (PMID: 31269601) Wang SF … Luo XP (Zhonghua yi xue za zhi 2019) 3

Products for TAFA4 Gene

Sources for TAFA4 Gene