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HOXA9 Gene

protein-coding   GIFtS: 62

GC07M027168
homeobox A9
(Previous name: homeo box A9 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbols: HOX1G, HOX1)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
ABD-B 2
HOX1 2
HOX1.7 2
HOX1G 2, 3, 5
Hox-1G 3
MGC1934 2
Descriptions
homeo box A9 1, 2
homeobox A9 2
homeobox protein HOXA9 2
homeodomain protein HOXA9 2
External Ids
HGNC: 51091
Entrez Gene: 32052
UniProtKB: P312693
Ensembl: ENSG000000783997
Search outside databases for aliases for HOXA9 gene

Previous GC identifers: GC07U990049 GC07M026844 GC07M026910 GC07M026945 GC07M026946 GC07M026975

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for HOXA9:
In vertebrates, the genes encoding the class of transcription factors called homeobox genes are
found in clusters named A, B, C, and D on four separate chromosomes. Expression of these proteins
is spatially and temporally regulated during embryonic development. This gene is part of the A
cluster on chromosome 7 and encodes a DNA-binding transcription factor which may regulate gene
expression, morphogenesis, and differentiation. This gene is highly similar to the abdominal-B
(Abd-B) gene of Drosophila. A specific translocation event which causes a fusion between this gene
and the NUP98 gene has been associated with myeloid leukemogenesis. [provided by RefSeq]

UniProtKB/Swiss-Prot: HXA9_HUMAN, P31269
Function: Sequence-specific transcription factor which is part of a developmental regulatory system
that provides cells with specific positional identities on the anterior-posterior axis

Gene Wiki entry for HOXA9

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the HOXA9 gene  

Entrez Gene cytogenetic band: 7p15-p14   Ensembl cytogenetic band:  7p15.2   HGNC cytogenetic band: 7p15.2

HOXA9 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 7         GeneLoc Exon Structure

GeneLoc location for GC07M027168:     (about GC identifiers)

Start:
27,168,582 bp from pter
End:
27,175,794 bp from pter
Size:
7,213 bases
Orientation:
minus strand

1 alternative location:
Chr7-,CRA_TCAG 27,253,232-27,256,324     
RefSeq DNA sequence:
NC_000007.12  NT_007819.16  NT_079592.2  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: HXA9_HUMAN, P31269 (See protein sequence)
Recommended Name: Homeobox protein Hox-A9  
Size: 272 amino acids; 30172 Da
Subcellular location: Nucleus
Secondary accessions: O43369 O43429 Q99820

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_689952.1  

    ENSEMBL proteins: 
    ENSP00000379634 ENSP00000242050 ENSP00000343619 ENSP00000222443 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
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    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (HOXA9)
    Human Recombinant Proteins from Abnova (HOXA9)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    1 Gene Ontology (GO) cellular component term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634 nucleus IEA--
    About this table

    Antibodies for HOXA9: 
    Browse Antibodies Central at Invitrogen
    Millipore Mono- and Polyclonal Antibodies for the study of HOXA9
    Sigma-Aldrich Antibodies for HOXA9
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (HOXA9), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (HOXA9)
    Novus Biologicals Antibody for HOXA9

    Assays for HOXA9: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

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

    5 InterPro domains/families:
     IPR017112 Homeobox_Hox9
     IPR001356 Homeobox
     IPR017970 Homeobox_CS
     IPR006711 Hox9_act
     IPR012287 Homeodomain-rel


       GeneDecks  HOXA9 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry P31269

    ProtoNet protein and cluster: P31269

    2 Blocks protein families:
    IPB000047 Lambda and other repressor helix-turn-helix signature
    IPB006711 Hox9 activation region


    UniProtKB/Swiss-Prot: HXA9_HUMAN, P31269
    Similarity: Belongs to the Abd-B homeobox family
    Similarity: Contains 1 homeobox DNA-binding domain

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (HOXA9)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (HOXA9)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_152739

                  Applied Biosystems Silencer® siRNAs for HOXA9

                  Sigma-Aldrich siRNA for HOXA9  
                         Sigma-Aldrich shRNA for HOXA9  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Browse Clone Ranger at Invitrogen for clones
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_152739
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_152739
                                     untagged cDNA clone in CMV expression vector: NM_152739 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_152739

    UniProtKB/Swiss-Prot: HXA9_HUMAN, P31269
    Function: Sequence-specific transcription factor which is part of a developmental regulatory system
    that provides cells with specific positional identities on the anterior-posterior axis

    Genatlas biochemistry entry for HOXA9:
    homeo box A9(1G),with two alternatively spliced isoforms,including either exon AB or CD,homologous
    to mouse Hox-1.7,Drosophila abd-B,fused with NUP98 in acute myeloid leukemia with translocation
    t(7;11),see AML2

    7 MGI mutant phenotypes (inferred from 2 alleles(MGI details for Hoxa9):

    endocrine/exocrine glandgrowth/sizehematopoietic systemimmune systemlimbs/digits/tail
    reproductive systemskeleton

    4 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003700 transcription factor activity IEA--
    GO:0005515 protein binding IPI16189514
    GO:0016563 transcription activator activity IEA--
    GO:0043565 sequence-specific DNA binding IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


     Gene Network CentralTM Interacting Genes and Proteins Network for  HOXA9 


    5/31 Interacting proteins for HOXA9 (P312691 ENSP000003436193) via UniProtKB, MINT, and/or STRING (see all 31 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    TRIP6Q156541EBI-742314, EBI-742327
    MEIS1ENSP000002723693STRING (score=.999)
    MEIS2ENSP000003722163STRING (score=.98)
    MEN1ENSP000003370883STRING (score=.976)
    NUP98ENSP000003160323STRING (score=.965)
    About this table

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006355 regulation of transcription, DNA-dependent IEA--
    GO:0007275 multicellular organismal development TAS8563754
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for HOXA9
    2 Novoseek chemical compound relationships for HOXA9 gene
    Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    estradiol 0.00 1 10834931 (1)
    tyrosine 0.00 3 16518848 (1), 14764452 (1), 15681849 (1)
    About this table


    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (HOXA9)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (HOXA9)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_152739

                  Sigma-Aldrich siRNA for HOXA9  
                         Sigma-Aldrich shRNA for HOXA9  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_152739  

    REFSEQ mRNAs for HOXA9 gene: 

    NM_152739.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_152739  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_152739
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_152739
                                     untagged cDNA clone in CMV expression vector: NM_152739 

    Additional cDNA sequence: 

    BC006537.2 BC010023.2 BT006990.1 DQ655931.2 U41813.1 U82759.1 

    4 DOTS entries:

    DT.410695  DT.100742593  DT.91718437  DT.95262960 

    24/182 AceView cDNA sequences (see all 182 ):

    NM_002142 AW612608 NM_152739 BE328694 AW770908 BX104119 NM_018951 AA195633 
    NM_153715 BM796352 AA599729 BC010023 AW452853 AA613299 AA535695 CA442923 
    AI187278 BQ422016 BC006537 AL080006 BE292889 BF434948 BU624206 AA577580 

    highest scoring ESTs for HOXA9:

    U41813 U82759 AL080006 BC006537 BC010023 BE292889 BG258601 BG284372 BG717723 BQ422016 

    Unigene Cluster for HOXA9:

    Homeobox A9
    Hs.659350  [show with all ESTs]
    Unigene Representative Sequence: NM_152739


    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for HOXA9

    ExUns: 1 ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c
    SP1:        -     -                           
    SP2:                                          
    SP3:                                          

    About this scheme

    ECgene alternative splicing isoforms for HOXA9

    4 Ensembl transcripts including schematic representations:
    ENST00000396345  ENST00000242050  ENST00000343483  ENST00000354032  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    HOXA9 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for HOXA9

    1 / 2 / 3

    6 probe-sets matching HOXA9 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    37810_at2, 3 U95-A 1 1.00 1.00 0.59 1.07 U82759 0.80 1.00 0.91 1
    37809_at2, 3 U95-A 1 1.00 1.00 0.99 1.06 U41813 1.00 0.90 0.95 1

    209905_at2, 3 U133-A 1 1.00 1.00 -- -- AI246769 0.60 0.83 0.73 1

    214651_s_at2, 3 U133-A 1 1.00 1.00 -- -- U41813 1.00 0.90 0.95 1

    209905_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    214651_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  HOXA9 for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: TACCTCACCA

    SOURCE GeneReport for Unigene cluster: Hs.659350

    Expression variation in blood from EXPOLDB for HOXA9

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for HOXA9 gene from 5/8 species (see all 8 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    HOXA91   -- homeobox A9 94.24(n)
    97.43(a)
    482372  XM_539489.2  XP_539489.2 
    chimpanzee
    (Pan troglodytes)
    HOXA91   -- homeobox A9 99.14(n)
    99.26(a)
    745701  XM_001162954.1  XP_001162954.1 
    cow
    (Bos taurus)
    HOXA91   -- homeobox A9 93.87(n)
    97.06(a)
    510459  XM_865658.2  XP_870751.1 
    rat
    (Rattus norvegicus)
    Hoxa91   -- homeobox A9 92.62(n)
    97.42(a)
    500126  XM_575478.2  XP_575478.2 
    mouse
    (Mus musculus)
    Hoxa91, 5 6 (26.32 cM)5
    homeo box A91, 5 92.99(n)1
    98.52(a)1
    154051  NM_010456.21  NP_034586.11 
     AA9871815  AB0054575  (see all 12)
    About this table        Species with no ortholog for HOXA9

    ENSEMBL Gene Tree for HOXA9
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Paralogs for HOXA9 gene
    HOXC92  HOXB92  HOXD92  

    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/38 NCBI SNPs in HOXA9 are shown (see all 38 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 75)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 7 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs78105021,2
    A,C,F,H27169664(+) TGAGAA/GAAGGG 1 -- ut31 trp34Minor allele frequency- G:0.39EU EA WA 410
    rs102596201,2
    A,C,F,H27168814(+) CCTCCG/AATTAA 1 -- ut31 ese317Minor allele frequency- A:0.33EU EA WA NA 1792
    rs64619901,2
    A,C,H27172357(+) AGTCAA/GATTCA 1 -- ng312Minor allele frequency- G:0.00EU EA 280
    rs38017761,2
    C,F,H27171807(+) GTCCGG/ATGTTT 1 -- ng315Minor allele frequency- A:0.30EU EA WA 578
    --
    rs64619911,2
    A,C,F27172992(+) GGAGAG/CGTACA 1 -- ng311Minor allele frequency- C:0.44EA 174
    rs117738041,2
    C,F,H27173213(+) ACTCCT/GAGAAC 1 -- ng315Minor allele frequency- G:0.46EU EA WA 600
    rs174721401,2
    F,H27169720(+) TTACCC/GTTTTT 1 -- ut31 trp34Minor allele frequency- G:0.01EU EA WA 388
    rs175009871,2
    F,H27169710(+) TCTCTC/GTAGCT 1 -- ut31 trp33Minor allele frequency- G:0.10EA WA 274
    rs174721751,2
    F,H27173197(+) CTAACA/CGAAAG 1 -- ng313Minor allele frequency- C:0.02EA WA 292
    rs175010011,2
    F,H27172516(+) TGCTAC/TGAGGA 1 -- ng314Minor allele frequency- T:0.02EU EA WA 418
    About this table

    HapMap Linkage Disequilibrium images for HOXA9 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 142956

    UniProtKB/Swiss-Prot: HXA9_HUMAN, P31269
  • A chromosomal aberration involving HOXA9 is found in a form of acute myeloid leukemia.
    Translocation t(7;11)(p15;p15) with NUP98
  • A chromosomal aberration involving HOXA9 may contribute to disease progression in chronic
    myeloid leukemia. Translocation t(7;17)(p15;q23) with MSI2
  • 10/11 Novoseek disease relationships for HOXA9 gene (see all 11 )

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    leukemogenesis 79.36 6 15755900 (2), 17379095 (1), 10698505 (1), 11830496 (1) (see all 5)
    myeloid leukemia 64.60 7 10602420 (2), 10996203 (1), 14713950 (1), 11687616 (1) (see all 6)
    leukemia 64.55 45 19056693 (4), 8563753 (3), 15755900 (3), 12358913 (2) (see all 23)
    acute leukemia 58.78 7 16102826 (2), 16518848 (1), 18337761 (1), 15160920 (1) (see all 5)
    myelodysplastic syndromes 42.99 3 15982348 (2), 17178874 (1)
    myeloid leukemia chronic 35.13 4 11830496 (1), 12649177 (1), 10602420 (1), 16630659 (1)
    lymphoblastic leukemia acute 33.74 3 11314021 (1), 16102826 (1), 18337761 (1)
    chromosomal aberrations 19.19 2 11314021 (1), 10565304 (1)
    hematologic malignancies 4.75 1 12461755 (1)
    cancer 0.00 1 15709170 (1)
    About this table

    1 PharmGKB disease relationship for HOXA9 gene
    Disease PharmGKB Relations PubMed IDs for articles supporting these relationships
    Leukemia, Lymphocytic, Acute, L1FA  GN  12086872 12730115
    About this table

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/164 PubMed articles for HOXA9 gene (see all 164 ):
    (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, and/or H-InvDB)
    About This Section

    Entrez Gene: 3205 HGNC: 5109 AceView: HOXA9andHOXA10 Ensembl:ENSG00000078399 euGenes: HUgn3205
    ECgene: HOXA9 H-InvDB: HOXA9
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

    NameDescription
    ATLAS Chromosomes in Cancer entry for HOXA9 Genetics and Cytogenetics in Oncology and Haematology
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for HOXA9:
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     TaqMan ® Genotyping Assays
      Free SNP selection tool



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