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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),...

  See related disease
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
Family With Sequence Similarity 19 (Chemokine (C-C Motif)-Like), Member
A31 2
Chemokine-Like Protein TAFA-32 3
TAFA32 3
TAFA-32
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


(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 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 encoding multiple
isoforms have been observed for this gene. (provided by RefSeq, Nov 2011)

GeneCards Summary for FAM19A3 Gene: 
FAM19A3 (family with sequence similarity 19 (chemokine (C-C motif)-like), member A3) is a protein-coding gene. Diseases associated with FAM19A3 include retinitis. An important paralog of this gene is FAM19A4.




(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_000001.10  NT_032977.9  NC_018912.2  
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 plasmidFAM19A3 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

(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: 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

Explore proteomics data for FAM19A3 at MOPED 

Post-translational modifications:

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

  • FAM19A3 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    FAM19A3 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001004440.1  NP_877436.1  

    ENSEMBL proteins: 
     ENSP00000358644   ENSP00000355042  

    Human Recombinant Protein Products for FAM19A3: 
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    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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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     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


    FAM19A3 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

    Animal Models:
       inGenious Targeting Laboratory - Custom generated mouse model solutions for FAM19A3 
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for FAM19A3 
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    (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 FAM19A3

    (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 FAM19A3 (F19A3)

    Search CenterWatch for drugs/clinical trials and news about FAM19A3 / F19A3

    (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 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
    miRNA
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    2 QIAGEN miScript miRNA Assays for microRNAs that regulate FAM19A3:
    hsa-miR-215 hsa-miR-192
    SwitchGear 3'UTR luciferase reporter plasmidFAM19A3 3' UTR sequence
    Inhib. RNA
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    DNA2.0 Custom Codon Optimized Gene Synthesis Service for FAM19A3
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat FAM19A3
    Sirion Biotech Customized lentivirus for stable overexpression of FAM19A3 
                         Customized lentivirus expression plasmids for stable overexpression of FAM19A3 
    Primer
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    OriGene qPCR primer pairs and template standards for FAM19A3
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat FAM19A3
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat FAM19A3

    Additional mRNA 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:

    BQ638101 BM694096 NM_001004440 BE731725 NM_182759 AY325116 AY325119 AI873311 
    BU632147 BU732283 AI141820 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

    (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)      FAM19A3 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TTGCAGGAAA
    FAM19A3 Expression
    About this image


    FAM19A3 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/4 selected tissues (see all 4) fully expand
     
     Ovary (Reproductive System)
             Human Ovarian Fibroblasts (HOF)   
     
     Blood (Hematopoietic System)
             Natural Killer Cells Peripheral Blood
     
     Eye (Sensory Organs)
             Type1 Off Cone Bipolar Cells Inner Nuclear Layer
     
     Fibroblast (Uncategorized)
             Human Ovarian Fibroblasts (HOF)   

    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

        SABiosciences Custom PCR Arrays for FAM19A3
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FAM19A3

    (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 3/6 species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Fam19a31 , 5 family with sequence similarity 19, member A31, 5 87.28(n)1
    87.02(a)1
      3 (45.84 cM)5
    3297311  NM_183224.31  NP_899047.11 
     1047674065 
    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 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



    (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

    10/216 SNPs in FAM19A3 are shown (see all 216)    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
    C,F--113262272(+) CCTAGG/AAGAGA 2 -- us2k11Minor allele frequency- A:0.13WA 118
    rs1133543811,2
    C,F--113262411(+) GAAAGG/AGGCAC 2 -- us2k11Minor allele frequency- A:0.50CSA 2

    HapMap Linkage Disequilibrium report for FAM19A3 (113263041 - 113269857 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for FAM19A3:    About this table     
    Variant IDTypeSubtypePubMed ID
    dgv332n71CNV Loss21882294
    esv27598CNV Loss19812545
    nsv818378CNV Gain17921354
    essv21692CNV CNV17122850

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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
    2 diseases for FAM19A3:    About MalaCards
    retinitis    


    FAM19A3 for disorders           About GeneDecksing

    Genetic Association Database (GAD): FAM19A3

    Export disorders for FAM19A3 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 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. Genome-wide association scan of quantitative traits for attention deficit hyperactivity disorder identifies novel associations and confirms candidate gene associations. (PubMed id 18821565)4 Lasky-Su J....Faraone S.V. (2008)
    4. 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)
    5. 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)
    6. 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)

    (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)

    (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

    (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 FAM19A3 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 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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, Cell lines from GenScript, and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or Enzo Life Sciences, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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    Category
    (GIFtS: 73)
    transforming growth factor, beta 1
    GIFtS Group
    The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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