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

AFP Gene

protein-coding   GIFtS: 67
GCID: GC04P074302

Alpha-Fetoprotein


(Previous symbol: HPAFP)
Microbiology & Infectious Diseases Congress
  See related diseases
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
alpha-fetoprotein1 2     alpha-fetoglobulin2
HPAFP1 2 3     Alpha-1-fetoprotein3
FETA2     Alpha-fetoglobulin3
alpha-1-fetoprotein2     HP5

External Ids:    HGNC: 3171   Entrez Gene: 1742   Ensembl: ENSG000000810517   OMIM: 1041505   UniProtKB: P027713   

Export aliases for AFP gene to outside databases

Previous GC identifers: GC04P074291 GC04P074541 GC04P074703 GC04P074768 GC04P074666 GC04P070113 GC04P074298


(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 AFP Gene:
This gene encodes alpha-fetoprotein, a major plasma protein produced by the yolk sac and the liver during fetal
life. Alpha-fetoprotein expression in adults is often associated with hepatoma or teratoma. However, hereditary
persistance of alpha-fetoprotein may also be found in individuals with no obvious pathology. The protein is
thought to be the fetal counterpart of serum albumin, and the alpha-fetoprotein and albumin genes are present in
tandem in the same transcriptional orientation on chromosome 4. Alpha-fetoprotein is found in monomeric as well
as dimeric and trimeric forms, and binds copper, nickel, fatty acids and bilirubin. The level of
alpha-fetoprotein in amniotic fluid is used to measure renal loss of protein to screen for spina bifida and
anencephaly. (provided by RefSeq, Jul 2008)

GeneCards Summary for AFP Gene: 
AFP (alpha-fetoprotein) is a protein-coding gene. Diseases associated with AFP include teratoma, and testicular cancer. GO annotations related to this gene include metal ion binding. An important paralog of this gene is AFM.

UniProtKB/Swiss-Prot: FETA_HUMAN, P02771
Function: Binds copper, nickel, and fatty acids as well as, and bilirubin less well than, serum albumin. Only a
small percentage (less than 2%) of the human AFP shows estrogen-binding properties

Gene Wiki entry for AFP (Alpha-fetoprotein) 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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000004.11  NC_018915.2  NT_022778.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the AFP gene promoter:
         MEF-2A   CUTL1   Nkx2-5   Pax-4a   C/EBPalpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidAFP promoter sequence
   Search SABiosciences Chromatin IP Primers for AFP

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


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

Entrez Gene cytogenetic band: 4q13.3   Ensembl cytogenetic band:  4q13.3   HGNC cytogenetic band: 4q13.3

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

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04P074302:  view genomic region     (about GC identifiers)

Start:
74,296,855 bp from pter      End:
74,321,891 bp from pter
Size:
25,037 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: FETA_HUMAN, P02771 (See protein sequence)
Recommended Name: Alpha-fetoprotein precursor  
Size: 609 amino acids; 68678 Da
Subunit: Dimeric and trimeric forms have been found in addition to the monomeric form
Subcellular location: Secreted
Developmental stage: Occurs in the plasma of fetuses more than 4 weeks old, reaches the highest levels during the
12th-16th week of gestation, and drops to trace amounts after birth. The serum level in adults is usually less
than 40 ng/ml. AFP occurs also at high levels in the plasma and ascitic fluid of adults with hepatoma
1 PDB 3D structure from and Proteopedia for AFP:
3MRK (3D)    
Secondary accessions: B2RBU3

Explore the universe of human proteins at neXtProt for AFP: NX_P02771

Explore proteomics data for AFP at MOPED 

Post-translational modifications:

  • UniProtKB: Independent studies suggest heterogeneity of the N-terminal sequence of the mature protein and of the cleavage
    site of the signal sequence
  • UniProtKB: Sulfated
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_P02771

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

    AFP Protein Expression
    REFSEQ proteins: NP_001125.1  
    ENSEMBL proteins: 
     ENSP00000379138   ENSP00000226359  

    Human Recombinant Protein Products for AFP: 
    Browse Purified and Recombinant Proteins at EMD Millipore
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    OriGene Purified Protein for AFP
    OriGene Protein Over-expression Lysate for AFP
    OriGene MassSpec for AFP 
    OriGene Custom Protein Services for AFP
    GenScript Custom Purified and Recombinant Proteins Services for AFP
    Novus Biologicals AFP Proteins
    Novus Biologicals AFP Lysates
    Sino Biological Recombinant Protein for AFP
    Sino Biological Cell Lysate for AFP 
    ProSpec Recombinant Protein for AFP
    Browse Proteins at Cloud-Clone Corp. 

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005615extracellular space IEA--
    GO:0005737cytoplasm IEA--

    AFP for ontologies           About GeneDecksing



    AFP Antibody Products: 
    EMD Millipore Mono- and Polyclonal Antibodies for the study of AFP
    R&D Systems Antibodies for AFP (alpha-Fetoprotein/AFP)
    Cell Signaling Technology (CST) Antibodies for AFP 
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    Novus Biologicals AFP Antibodies
    Abcam antibodies for AFP
    Browse Antibodies at Cloud-Clone Corp. 
    ThermoFisher Antibody for AFP
    LSBio Antibodies in human, mouse, rat for AFP 

    Assay Products for AFP: 
    Browse Kits and Assays available from EMD Millipore
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    R&D Systems ELISAs for AFP (alpha-Fetoprotein/AFP)         (see all)
    GenScript Custom Assay Services for AFP
    Browse Enzo Life Sciences for kits & assays
    Browse ELISAs at Cloud-Clone Corp. 
    Browse CLIAs at Cloud-Clone Corp.


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    5/6 InterPro protein domains (see all 6):
     IPR020858 Serum_albumin-like
     IPR000264 ALB/AFP/VDB
     IPR001703 Alpha-fetoprotein
     IPR014760 Serum_albumin_N
     IPR020857 Serum_albumin_CS

    Graphical View of Domain Structure for InterPro Entry P02771

    ProtoNet protein and cluster: P02771

    2 Blocks protein domains:
    IPB000264 Serum albumin family
    IPB001703 Alpha-fetoprotein signature


    UniProtKB/Swiss-Prot: FETA_HUMAN, P02771
    Similarity: Belongs to the ALB/AFP/VDB family
    Similarity: Contains 3 albumin domains


    AFP 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

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: FETA_HUMAN, P02771
    Function: Binds copper, nickel, and fatty acids as well as, and bilirubin less well than, serum albumin. Only a
    small percentage (less than 2%) of the human AFP shows estrogen-binding properties

         Genatlas biochemistry entry for AFP:
    alpha-fetoprotein

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0046872metal ion binding IEA--
         
    AFP for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for AFP:
     Increased G1 DNA content  Increased HPV18 LCR reporter a 

         6 MGI mutant phenotypes (inferred from 4 alleles(MGI details for Afp):
     behavior/neurological  endocrine/exocrine gland  homeostasis/metabolism  mortality/aging  reproductive system 
     tumorigenesis 

    AFP for phenotypes           About GeneDecksing

    Animal Models:
         MGI mouse knock-out Afp/AlbAfp/tm1.1Brts for AFP

       inGenious Targeting Laboratory - Custom generated mouse model solutions for AFP 
       inGenious Targeting Laboratory - Custom generated inducible mouse model solutions for AFP

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for AFP 
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for AFP 

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat AFP
    4 QIAGEN miScript miRNA Assays for microRNAs that regulate AFP:
    hsa-miR-1270 hsa-miR-942 hsa-miR-620 hsa-miR-1236
    SwitchGear 3'UTR luciferase reporter plasmidAFP 3' UTR sequence
    Inhib. RNA
    Products:
        
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for AFP
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat AFP

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for AFP
    Sirion Biotech Customized adenovirus for overexpression of AFP

    Clone
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    Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore
    OriGene clones in human, mouse for AFP (see all 6)
    OriGene ORF clones in mouse, rat for AFP
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    GenScript: all cDNA clones in your preferred vector: AFP (NM_001134)
    Sino Biological Human cDNA Clone for AFP
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for AFP
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat AFP
    Sirion Biotech Customized lentivirus for stable overexpression of AFP 
                         Customized lentivirus expression plasmids for stable overexpression of AFP 

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    Search LifeMap BioReagents cell lines for AFP
    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for AFP


    (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

    SuperPaths for AFP About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Hippo signaling pathway
    Hippo signaling pathway
    2Glucocorticoid receptor regulatory network
    Glucocorticoid receptor regulatory network
    3FOXA2 and FOXA3 transcription factor networks
    FOXA2 and FOXA3 transcription factor networks
    4Direct p53 effectors
    Direct p53 effectors
    5Wnt / Hedgehog / Notch
    Wnt / Hedgehog / Notch

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    1 Cell Signaling Technology (CST) Pathway for AFP
        Wnt / Hedgehog / Notch

    3 BioSystems Pathways for AFP
        Glucocorticoid receptor regulatory network
    FOXA2 and FOXA3 transcription factor networks
    Direct p53 effectors



    1         Kegg Pathway  (Kegg details for AFP):
        Hippo signaling pathway


    AFP for pathways           About GeneDecksing

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for AFP

    STRING Interaction Network Preview (showing 5 interactants - click image to see 16)

    5/19 Interacting proteins for AFP (P027712, 3 ENSP000002263594) via UniProtKB, MINT, STRING, and/or I2D (see all 19)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SGSM2O431472, 3MINT-64867 I2D: score=5 
    CCR5P516813, ENSP000002923034I2D: score=2 STRING: ENSP00000292303
    HLA-BP304803, ENSP000003991684I2D: score=1 STRING: ENSP00000399168
    STAMBPO956303, ENSP000003447424I2D: score=2 STRING: ENSP00000344742
    CASP3P425743I2D: score=1 
    About this table

    Gene Ontology (GO): 5 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001542ovulation from ovarian follicle IEA--
    GO:0006810transport IEA--
    GO:0019953sexual reproduction ----
    GO:0042448progesterone metabolic process IEA--
    GO:0060395SMAD protein signal transduction IEA--

    AFP for ontologies           About GeneDecksing



    (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

    AFP for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for AFP (FETA)

    3 HMDB Compounds for AFP    About this table
    CompoundSynonyms CAS #PubMed Ids
    Bilirubin(4Z,15Z)-Bilirubin IXa (see all 17)635-65-4--
    CopperCu (see all 2)7440-50-8--
    NickelCarbonyl nickel powder (see all 19)7440-02-0--

    10/116 Novoseek inferred chemical compound relationships for AFP gene (see all 116)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    oestriol 87.2 65 9795869 (2), 7479589 (1), 8904471 (1), 10589060 (1) (see all 62)
    lipiodol 71.6 10 11895553 (2), 16258102 (1), 16333675 (1), 7511068 (1) (see all 7)
    nitrazine 63 12 1695510 (5), 8902437 (4), 7586524 (3)
    cisplatin 61 25 18260360 (3), 1708922 (1), 1377669 (1), 7506867 (1) (see all 17)
    bleomycin 57.4 7 8863237 (1), 18260360 (1), 1384296 (1), 1382827 (1) (see all 6)
    etoposide 53.8 15 18260360 (2), 7506867 (1), 8863237 (1), 1382827 (1) (see all 10)
    smancs 45.8 17 9512693 (4)
    ntbc 44.7 2 17008115 (2)
    adriamycin 41 15 1380075 (2), 1711147 (1), 1691730 (1), 8667626 (1) (see all 5)
    cis-diaminodichloroplatinum 38.4 2 8391290 (1)

    Search CenterWatch for drugs/clinical trials and news about AFP / FETA

    (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 AFP gene: 
    NM_001134.2  

    Unigene Cluster for AFP:

    Alpha-fetoprotein
    Hs.518808  [show with all ESTs]
    Unigene Representative Sequence: BC027881
    7 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000513720 ENST00000515675(uc003hgy.1) ENST00000395792(uc003hgz.1 uc011cbg.1)
    ENST00000226359 ENST00000508838 ENST00000514279 ENST00000506820
    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
    Products:
         
    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat AFP
    4 QIAGEN miScript miRNA Assays for microRNAs that regulate AFP:
    hsa-miR-1270 hsa-miR-942 hsa-miR-620 hsa-miR-1236
    SwitchGear 3'UTR luciferase reporter plasmidAFP 3' UTR sequence
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for AFP
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat AFP
    Clone
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    OriGene clones in human, mouse for AFP (see all 6)
    OriGene ORF clones in mouse, rat for AFP
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector: AFP (NM_001134)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for AFP
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat AFP
    Sirion Biotech Customized lentivirus for stable overexpression of AFP 
                         Customized lentivirus expression plasmids for stable overexpression of AFP 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat AFP
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat AFP

    Additional mRNA sequence: 

    AF484525.1 AF484526.1 AK297669.1 AK297674.1 AK314817.1 BC027881.1 V01514.1 

    21 DOTS entries:

    DT.95165242  DT.100871902  DT.449398  DT.100871898  DT.121276106  DT.100871901  DT.100871907  DT.121276084 
    DT.100871914  DT.92458729  DT.95165257  DT.121276107  DT.75179602  DT.92458727  DT.95165243  DT.95165265 
    DT.100651994  DT.100871911  DT.121276061  DT.92458758  DT.95165245 

    24/535 AceView cDNA sequences (see all 535):

    AU120344 CR608871 AU076699 CR625429 AU121141 BX423702 AU120127 AU120294 
    AU120936 AU121308 AA334628 AU120846 BX426750 AU121380 AA334278 AU120517 
    AU120341 AU120955 AU120336 AA334542 BX346092 BX445321 AU120492 AA332892 

    GeneLoc Exon Structure


    (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

    AFP expression in normal human tissues (normalized intensities)      AFP embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AATATTCAAG
    AFP Expression
    About this image


    AFP expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database 
     5/24 selected tissues (see all 24) fully expand
     
     Liver (Hepatobiliary System)    fully expand to see all 16 entries
             Hepatic Diverticulum Cells Hepatic Diverticulum
             Liver Lobule
             Immature hepatocytes ( Functional, immature hepatocyte differentiation from human...
             Human Hepatocyte (HH)   
     
     Gut Tube (Gastrointestinal Tract)    fully expand to see all 6 entries
             Hepatic Endoderm Cells Ventral Foregut Endoderm
             Hindgut
             Endoderm-like cells ( Derivation of pancreatic progenitor cells using the small...
     
     Hypoblast (Extraembryonic Tissues)    fully expand to see all 5 entries
             Extraembryonic Visceral Endoderm Cells Extraembryonic Visceral Endoderm
     
     Yolk Sac (Extraembryonic Tissues)    fully expand to see all 5 entries
             Extraembryonic Visceral Endoderm Cells Extraembryonic Visceral Endoderm
     
     Pancreas (Endocrine System)    fully expand to see all 4 entries
             Bipotent Endocrine/Duct Progenitor Cells Dorsal Pancreatic Bud
             Definitive endoderm-like cells ( Derivation of beta cells and pancreatic-like islets...
             visceral organ/gut/foregut-midgut junction   

    See AFP Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for AFP

    SOURCE GeneReport for Unigene cluster: Hs.518808

    UniProtKB/Swiss-Prot: FETA_HUMAN, P02771
    Tissue specificity: Plasma. Synthesized by the fetal liver and yolk sac

        SABiosciences Expression via Pathway-Focused PCR Array including AFP: 
              Embryonic Stem Cells in human mouse rat

    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for AFP
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat AFP
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for AFP

    (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 AFP gene from 4/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Afp1 , 5 alpha fetoprotein1, 5 75.54(n)1
    65.79(a)1
      5 (44.77 cM)5
    115761  NM_007423.41  NP_031449.31 
     904907145 
    chicken
    (Gallus gallus)
    Aves AFP1 alpha-fetoprotein 57.77(n)
    43.73(a)
      422652  XM_003641200.1  XP_003641248.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    --
    Uncharacterized protein
    40(a)
    36(a)
    many ↔ many
    many ↔ many
    GL343253.1(493847-512660)
    GL343253.1(478702-490825)
    zebrafish
    (Danio rerio)
    Actinopterygii gc6
    group-specific component (vitamin D binding protei...
    16(a)
    1 → many
    5(47282879-47303096)


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for AFP gene
    AFM2  ALB2  GC2  
    2 SIMAP similar genes for AFP using alignment to 2 protein entries:     FETA_HUMAN (see all proteins):
    AFM    ALB

    AFP 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

    10/462 SNPs in AFP are shown (see all 462)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1219126851,2
    Cpathogenic174186078(+) CTTTGG/AGCTGC 2 /W /* stg11Minor allele frequency- A:0.00EU 1317
    rs105947181,2
    C--70117195(+) ATATG-/TATATAT 1 -- int10--------
    rs58593731,2
    C--70117196(+) TATAT-/ATGTATG 1 -- int12Minor allele frequency- AT:0.00NA CSA 4
    rs119411001,2
    A,H--70123874(+) TTCTCA/GTGGAG 1 -- int10--------
    rs1917022251,2
    --74178004(+) CTCTAC/TATTAA 1 -- us2k10--------
    rs1831938781,2
    C--74178046(+) ATTCAC/TCAAAT 1 -- us2k10--------
    rs1472657971,2
    --74178077(+) AACCAA/GACACT 1 -- us2k10--------
    rs1396838801,2
    --74178182(+) TGACTA/GTTGCT 1 -- us2k10--------
    rs1855595131,2
    --74178281(+) TAAATA/GCTATC 1 -- us2k10--------
    rs1494988371,2
    C--74178292(+) CTGGAA/GTCCAA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for AFP (74296855 - 74321891 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for AFP:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv2727825CNV Deletion23290073
    esv992213CNV Deletion20482838
    esv2326887CNV Deletion18987734
    esv1032914CNV Deletion17803354
    nsv293440CNV Loss16902084


    Human Gene Mutation Database (HGMD): AFP
    SABiosciences Cancer Mutation PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing AFP
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 104150    OMIM disorders: --

    20/178 diseases for AFP (see all 178):    About MalaCards
    teratoma    testicular cancer    endodermal sinus tumor    hereditary persistence of alpha-fetoprotein
    mixed germ cell tumor    malignant germ cell tumor    extragonadal germ cell tumor    spina bifida
    spina bifida aperta    polyembryoma    cutis marmorata telangiectatica congenita    malignant sertoli cell tumor
    growing teratoma syndrome    pineal region teratoma    testicular yolk sac tumor    gastric teratoma
    anencephaly    congenital deficiency in alpha-fetoprotein    liver sarcoma    germ cell tumors

    20/33 diseases from the University of Copenhagen DISEASES database for AFP (see all 33):
    Hepatocellular carcinoma     Liver cirrhosis     Down syndrome     Endodermal sinus tumor
    Teratoma     Spina bifida     Hepatoblastoma     Hepatitis B
    Testicular cancer     Hepatitis     Edwards syndrome     Seminoma
    Carcinoma     Embryonal carcinoma     Portal vein thrombosis     Oligohydramnios
    Gastroschisis     Cholangiocarcinoma     Patau syndrome     Cystic lymphangioma

    AFP for disorders           About GeneDecksing

    10/94 Novoseek inferred disease relationships for AFP gene (see all 94)    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    hepatocellular carcinoma 94.3 660 17250819 (8), 12834318 (7), 7686840 (5), 9754243 (5) (see all 99)
    yolk sac tumor 90.1 67 15924879 (3), 17197899 (3), 1691611 (3), 9094031 (2) (see all 46)
    down syndrome 82.6 223 9639764 (5), 8649703 (5), 19777489 (5), 11679535 (4) (see all 99)
    hepatoblastoma 80.4 65 9094031 (4), 10626849 (4), 18525464 (3), 17535089 (2) (see all 36)
    cirrhosis 79.6 177 19968979 (6), 15004489 (3), 9166938 (3), 17214153 (3) (see all 99)
    liver cirrhosis 79.4 102 10355508 (5), 1717126 (5), 17288606 (3), 1709347 (2) (see all 75)
    tumors 79 1405 8646674 (6), 9118030 (4), 12209753 (4), 9422080 (4) (see all 99)
    teratoma 76.7 48 10386812 (3), 19493258 (2), 9258169 (2), 11745252 (2) (see all 34)
    carcinoma embryonal 72.5 15 10386812 (3), 8952646 (2), 9784334 (1), 19461507 (1) (see all 12)
    chronic liver disease 71.5 59 11149026 (5), 7690873 (2), 10365905 (2), 16273636 (2) (see all 42)

    Genetic Association Database (GAD): AFP
    Human Genome Epidemiology (HuGE) Navigator: AFP (13 documents)

    Export disorders for AFP 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 AFP gene, integrated from 9 sources (see all 1811):
    (articles sorted by number of sources associating them with AFP)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Single nucleotide polymorphism in the promoter region of human alpha-fetoprotein (AFP) gene and its significance in hepatocellular carcinoma (HCC). (PubMed id 17433605)1, 4, 9 Chen G.G....Lai P.B. (2007)
    2. Alpha-fetoprotein gene polymorphisms and risk of HCC and cirrhosis. (PubMed id 19968979)1, 4, 9 Suriapranata I.M....Tai S. (2010)
    3. A G-->A substitution in an HNF I binding site in the human alpha- fetoprotein gene is associated with hereditary persistence of alpha- fetoprotein (HPAFP). (PubMed id 7684942)1, 2, 9 McVey J.H.... Tuddenham E.G.D. (1993)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    5. Human alpha-fetoprotein primary structure: a mass spectrometric study. (PubMed id 1709810)1, 2 Pucci P.... Terrana B. (1991)
    6. Structure, polymorphism, and novel repeated DNA elements revealed by a complete sequence of the human alpha-fetoprotein gene. (PubMed id 2436661)1, 2 Gibbs P.E.M.... Dugaiczyk A. (1987)
    7. The human alpha-fetoprotein gene. Sequence organization and the 5' flanking region. (PubMed id 2580830)1, 2 Sakai M....Tamaoki T. (1985)
    8. Tyrosine sulfation of proteins from the human hepatoma cell line HepG2. (PubMed id 2414772)1, 2 Liu M.C.... Lipmann F. (1985)
    9. Primary structures of human alpha-fetoprotein and its mRNA. (PubMed id 6192439)1, 2 Morinaga T.... Tamaoki T. (1983)
    10. Structure and evolution of human alpha-fetoprotein deduced from partial sequence of cloned cDNA. (PubMed id 6187626)1, 2 Beattie W.G. and Dugaiczyk A. (1982)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    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: 174 HGNC: 317 AceView: AFP Ensembl:ENSG00000081051 euGenes: HUgn174
    ECgene: AFP Kegg: 174 H-InvDB: AFP

    (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 AFP Pharmacogenomics, SNPs, Pathways
    ATLAS Chromosomes in Cancer entry for AFP Genetics and Cytogenetics in Oncology and Haematology
    Wikipedia http://en.wikipedia.org/wiki/Alpha-fetoprotein

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

    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
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    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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