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

FAM19A3 Gene

protein-coding   GIFtS: 44
GCID: GC01P113263

family with sequence similarity 19 (chemokine (C-C motif)-like),...
 Explore 1 disease affiliated with
FAM19A3 via
MalaCards
our new
 Human Malady Compendium 
Biological research products
for FAM19A3    

Aliases
for FAM19A3 gene

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section
Aliases
Family With Sequence Similarity 19 (Chemokine (C-C Motif)-Like), Member
A31 2
TAFA-31 2
Chemokine-Like Protein TAFA-32 3
TAFA32 3
Protein FAM19A32

External Ids:    HGNC: 215901   Entrez Gene: 2844672   Ensembl: ENSG000001845997   UniProtKB: Q7Z5A83   

Export aliases for FAM19A3 gene to outside databases

Previous GC identifers: GC01P112976 GC01P113064 GC01P111122


Summaries
for FAM19A3 gene

(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section
Entrez Gene summary for FAM19A3:
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 encoding multiple isoforms have been observed for this
gene. (provided by RefSeq, Nov 2011)




Genomic Views
for FAM19A3 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 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000001.10  NC_018912.1  NT_032977.9  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the FAM19A3 gene promoter:
         GR   Ik-2   AP-1   p53   GR-beta   GR-alpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmid: FAM19A3 promoter sequence
   Search SABiosciences Chromatin IP Primers for FAM19A3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat FAM19A3


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

Entrez Gene cytogenetic band: 1p13.2   Ensembl cytogenetic band:  1p13.2   HGNC cytogenetic band: 1p13.2

FAM19A3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FAM19A3 gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P113263:  view genomic region     (about GC identifiers)

Start:
 113,263,041 bp from pter      End:
 113,269,857 bp from pter
Size:
 6,817 bases      Orientation:
 plus strand

Proteins
for FAM19A3 gene

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, 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 Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section
UniProtKB/Swiss-Prot: F19A3_HUMAN, Q7Z5A8 (See protein sequence)
Recommended Name: Protein FAM19A3 precursor  
Size: 133 amino acids; 14776 Da
Subcellular location: Secreted
Secondary accessions: B7ZLU0 Q2M1P9 Q7Z5A6
Alternative splicing: 2 isoforms:  Q7Z5A8-1   Q7Z5A8-2   

Explore the universe of human proteins at neXtProt for FAM19A3: NX_Q7Z5A8

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q7Z5A8

    • FAM19A3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001004440.1  NP_877436.1  

    ENSEMBL proteins: 
     ENSP00000358644   ENSP00000355042  

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    Uscn Proteins for FAM19A3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005576extracellular region IEA--


    FAM19A3 for ontologies           About GeneDecksing



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    Protein Domains /
    Families
    for FAM19A3 gene

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    FAM19A3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR020350 Chemokine-like_FAM19A2

    Graphical View of Domain Structure for InterPro Entry Q7Z5A8

    ProtoNet protein and cluster: Q7Z5A8

    UniProtKB/Swiss-Prot: F19A3_HUMAN, Q7Z5A8
    Similarity: Belongs to the FAM19/TAFA family


    Function
    for FAM19A3 gene

    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    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, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section
    miRNA
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    Pathways & Interactions
    for FAM19A3 gene

    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, 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 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for FAM19A3

    Drugs & Compounds
    for FAM19A3 gene

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, 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
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    Browse Tocris compounds for FAM19A3
    Search CenterWatch for drugs/clinical trials and news about FAM19A3 / F19A3 

    Transcripts
    for FAM19A3 gene

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
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    About This Section
    REFSEQ mRNAs for FAM19A3 gene (2 alternative transcripts): 
    NM_001004440.1  NM_182759.2  

    Unigene Cluster for FAM19A3:

    Family with sequence similarity 19 (chemokine (C-C motif)-like), member A3
    Hs.439116  [show with all ESTs]
    Unigene Representative Sequence: AY325119
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000369630(uc001ecu.3 uc001ecv.3 uc010owk.2 uc010owl.2)
    ENST00000361886

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    Additional cDNA sequence: 

    AY325116.1 AY325119.1 BC112268.1 BC117479.1 BC143949.1 BC144042.1 BC144043.1 

    2 DOTS entries:

    DT.101980155  DT.97823929 

    12 AceView cDNA sequences:

    NM_182759 BE731725 BM694096 BQ638101 NM_001004440 AY325116 AI141820 AY325119 
    AI873311 BU732283 BU632147 BM692070 

    GeneLoc Exon Structure

    2 Alternative Splicing Database (ASD) splice patterns (SP) for FAM19A3    About this scheme

    ExUns: 1 ^ 2 ^ 3 ^ 4a · 4b ^ 5
    SP1:                                    
    SP2:                    -               


    ECgene alternative splicing isoforms for FAM19A3

    Expression
    for FAM19A3 gene

    (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

    FAM19A3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: TTGCAGGAAA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)
    About this image

    FAM19A3 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    1 LifeMap In Vivo Development Anatomical Compartment/Cell 
    Tissue Anatomical Compartment CellCategory (developmental path)
    EyeInner Nuclear LayerType1 Off Cone Bipolar CellsBipolar, Retina
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See FAM19A3 Protein Expression from SPIRE MOPED and PaxDB
    SOURCE GeneReport for Unigene cluster: Hs.439116

    UniProtKB/Swiss-Prot: F19A3_HUMAN, Q7Z5A8
    Tissue specificity: Brain-specific

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    In Situ
    Assay Products:     
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    Orthologs
    for FAM19A3 gene

    (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 chordates.

    Orthologs for FAM19A3 gene from 2/8 species (see all 8)    About this table
    Organism Taxonomic
    classification    		 Gene Description Human
    Similarity    		 Orthology
    Type    		 Details
    chicken
    (Gallus gallus)    		 Aves FAM19A31 family with sequence similarity 19 (chemokine (C-C more 72.68(n)
    74.44(a)    		   419874  XM_418001.2  XP_418001.2 
    zebrafish
    (Danio rerio)    		 Actinopterygii LOC1003335871 protein FAM19A2-like 70.34(n)
    74.58(a)    		   100333587  XM_002662529.2  XP_002662575.2 


    ENSEMBL Gene Tree for FAM19A3 (if available)
    TreeFam Gene Tree for FAM19A3 (if available) 

    Paralogs
    for FAM19A3 gene

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for FAM19A3 gene
    FAM19A42  FAM19A12  FAM19A22  FAM19A52  
    4 SIMAP similar genes for FAM19A3 using alignment to 1 protein entry:     F19A3_HUMAN:
    FAM19A4    FAM19A2    FAM19A1    FAM19A5

    FAM19A3 for paralogs           About GeneDecksing



    Genomic Variants
    for FAM19A3 gene

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, 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

    10/177 NCBI SNPs in FAM19A3 are shown (see all 177)     About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance    		Chr 1 posSequence#AA
    Chg    		TypeMore#Allele
    freq    		PopTotal
    sample    		More
    ----------
    rs1464734891,2
    		--113261217(+) AACATG/TCCACT 2 -- us2k10--------
    rs1807297331,2
    		--113261373(+) TTCAGC/GGTTTT 2 -- us2k10--------
    rs74155971,2
    		C,H--113261455(+) TCTCCC/TTTCCT 2 -- us2k1 tfbs3 trp32Minor allele frequency- T:0.00NS NA 226
    rs1848614831,2
    		--113261976(+) AGGGGA/GGTTTG 2 -- us2k10--------
    rs1144638151,2
    		F,--113262064(+) CAGCCT/ACACTA 2 -- us2k11Minor allele frequency- A:0.08WA 118
    rs1148934571,2
    		C,F,--113262065(+) AGCCTC/AACTAA 2 -- us2k11Minor allele frequency- A:0.08WA 118
    rs1896714111,2
    		--113262141(+) ACACAC/TCCCAG 2 -- us2k10--------
    rs1432633881,2
    		--113262193(+) ATGCCA/CGGGAT 2 -- us2k10--------
    rs779932801,2
    		F,--113262272(+) CCTAGG/AAGAGA 2 -- us2k11Minor allele frequency- A:0.13WA 118
    rs1133543811,2
    		--113262411(+) GAAAGG/AGGCAC 2 -- us2k11Minor allele frequency- A:0.50CSA 2

    HapMap Linkage Disequilibrium report for FAM19A3 (113263041 - 113269857 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
    Database of Genomic Variants (DGV): 4 variations for FAM19A3
         4 CNVs: 9368 2322 3306 64626

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    Disorders / Diseases
    for FAM19A3 gene

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    FAM19A3 for disorders           About GeneDecksing

    1 disease for FAM19A3:    About MalaCards
    retinitis


    Export disorders for FAM19A3 gene to outside databases

    Publications
    for FAM19A3 gene

    (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 FAM19A3 gene integrated from 9 sources:
    (articles sorted by number of sources associating them with FAM19A3)    		    Utopia: connect your pdf to the dynamic
    world of online information

    1. TAFA: a novel secreted family with conserved cysteine residues and restricted expression in the brain. (PubMed id 15028294)1, 2, 3 Tom Tang Y....Rupp F. (2004)
    2. The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
    5. Expressed sequence tag analysis of human retina for the NEIBank project: retbindin, an abundant, novel retinal cDNA and alternative splicing of other retina-preferred gene transcripts. (PubMed id 12107411)1 Wistow G.... Peterson K. (2002)

    External Searches for FAM19A3 gene

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  
      Query String
    		PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    Genome Databases showing FAM19A3 gene

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 284467 HGNC: 21590 AceView: TAFA3 Ensembl:ENSG00000184599 euGenes: HUgn284467
    ECgene: FAM19A3 H-InvDB: FAM19A3

    Other Databases showing FAM19A3 gene

    (According to HUGE)
    About This Section
    		   --

    Specialized Databases showing FAM19A3 gene

    (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 FAM19A3 Pharmacogenomics, SNPs, Pathways

    Intellectual Property
    for FAM19A3 gene

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    		Patent Information for FAM19A3 gene:
    Search GeneIP for patents involving FAM19A3

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    Products
    for FAM19A3 gene

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    About This Section

     
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