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

BTF3 Gene

protein-coding   GIFtS: 56
GCID: GC05P072794

basic transcription factor 3

(Previous name: nascent-polypeptide-associated complex beta polypeptide...)
(Previous symbol: NACB)
 Explore 11 diseases affiliated with
BTF3 via our new
 Human Malady Compendium 
Biological research products
for BTF3
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Basic Transcription Factor 31 2     Nascent-Polypeptide-Associated Complex Beta Polypeptide1 2
NACB1 2 3     RNA Polymerase B Transcription Factor 32 3
BTF3a1 2     BETA-NAC2
BTF3b1 2     Transcription Factor BTF32

External Ids:    HGNC: 11251   Entrez Gene: 6892   Ensembl: ENSG000001457417   OMIM: 6025425   UniProtKB: P202903   

Export aliases for BTF3 gene to outside databases

Previous GC identifers: GC05P071599 GC05P073027 GC05P072832 GC05P072878 GC05P072830 GC05P067999


(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 BTF3:
This gene encodes the basic transcription factor 3. This protein forms a stable complex with RNA polymerase IIB and is
required for transcriptional initiation. Alternative splicing results in multiple transcript variants encoding
different isoforms. This gene has multiple pseudogenes. (provided by RefSeq, Jul 2008)

UniProtKB/Swiss-Prot: BTF3_HUMAN, P20290
Function: General transcription factor. BTF3 can form a stable complex with RNA polymerase II. Required for the
initiation of transcription

Gene Wiki entry for BTF3


(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_000005.9  NC_018916.1  NT_006713.15  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the BTF3 gene promoter:
         Nkx3-1   Egr-3   TBP   Pax-5   GCNF   SRY   TFIID   GCNF-1   Sox9   GCNF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidBTF3 promoter sequence
   Search SABiosciences Chromatin IP Primers for BTF3

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat BTF3


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

Entrez Gene cytogenetic band: 5q13.2   Ensembl cytogenetic band:  5q13.2   HGNC cytogenetic band: 5q13.3

BTF3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
BTF3 gene location

GeneLoc information about chromosome 5         GeneLoc Exon Structure

GeneLoc location for GC05P072794:  view genomic region     (about GC identifiers)

Start:
72,794,233 bp from pter      End:
72,801,460 bp from pter
Size:
7,228 bases      Orientation:
plus strand

(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: BTF3_HUMAN, P20290 (See protein sequence)
Recommended Name: Transcription factor BTF3  
Size: 206 amino acids; 22168 Da
Subcellular location: Nucleus
2 PDB 3D structures from and Proteopedia for BTF3:
3LKX (3D)        3MCB (3D)    
Secondary accessions: A8K510 Q13893 Q76M56
Alternative splicing: 2 isoforms:  P20290-1   P20290-2   

Explore the universe of human proteins at neXtProt for BTF3: NX_P20290

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_P20290

  • BTF3 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001032726.1  NP_001198.2  

    ENSEMBL proteins: 
     ENSP00000338516   ENSP00000369965   ENSP00000420978   ENSP00000425490  

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    Uscn Proteins for BTF3

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--


    BTF3 for ontologies           About GeneDecksing



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

    BTF3 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR002715 Nas_poly-pep-assoc_cplx_dom

    Graphical View of Domain Structure for InterPro Entry P20290

    ProtoNet protein and cluster: P20290

    1 Blocks protein family: IPB002715 Nascent polypeptide-associated complex NAC

    UniProtKB/Swiss-Prot: BTF3_HUMAN, P20290
    Similarity: Belongs to the NAC-beta family
    Similarity: Contains 1 NAC-A/B (NAC-alpha/beta) domain


    (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

    Function Summary:

         UniProtKB/Swiss-Prot: BTF3_HUMAN, P20290
    Function: General transcription factor. BTF3 can form a stable complex with RNA polymerase II. Required for the
    initiation of transcription

         Genatlas biochemistry entry for BTF3:
    general transcription factor BTF3,forming a stable complex with RNA polymerase II, required for initiation of
    transcription

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    hsa-miR-3163 hsa-miR-4274 hsa-miR-518a-5p hsa-miR-558 hsa-miR-646
    SwitchGear 3'UTR luciferase reporter plasmidBTF3 3' UTR sequence
    Inhib. RNA
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI18025262


    BTF3 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for BTF3:
     Increased cell death HMECs cel 

    Animal Models:
         1 MGI mutant phenotype (inferred from 1 allele(MGI details for Btf3):
     mortality/aging 

    BTF3 for phenotypes           About GeneDecksing


    (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:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for BTF3

    STRING Interaction Network Preview (showing 5 interactants - click image to see 22)

    5/45 Interacting proteins for BTF3 (P202901, 3 ENSP000003699654) via UniProtKB, MINT, STRING, and/or I2D (see all 45)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    USP17L24Q0WX573I2D: score=1 
    USP17L25Q0WX573I2D: score=1 
    USP17L26Q0WX573I2D: score=1 
    USP17L27Q0WX573I2D: score=1 
    USP17L28Q0WX573I2D: score=1 
    About this table

    Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0001701in utero embryonic development IEA--
    GO:0006355regulation of transcription, DNA-dependent IEA--
    GO:0006366transcription from RNA polymerase II promoter TAS2320128


    BTF3 for ontologies           About GeneDecksing



    (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
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for BTF3
    Search CenterWatch for drugs/clinical trials and news about BTF3 

    (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,
    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, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for BTF3 gene (2 alternative transcripts): 
    NM_001037637.1  NM_001207.4  

    Unigene Cluster for BTF3:

    Basic transcription factor 3
    Hs.591768  [show with all ESTs]
    Unigene Representative Sequence: BQ923254
    9 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000335895 ENST00000512257(uc010izd.1) ENST00000514505 ENST00000514360
    ENST00000380591(uc003kcr.1 uc003kcq.1) ENST00000510787 ENST00000508901
    ENST00000507081 ENST00000509708

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    5 QIAGEN miScript miRNA Assays for microRNAs that regulate BTF3:
    hsa-miR-3163 hsa-miR-4274 hsa-miR-518a-5p hsa-miR-558 hsa-miR-646
    SwitchGear 3'UTR luciferase reporter plasmidBTF3 3' UTR sequence
    Inhib. RNA
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    Additional cDNA sequence: 

    AB062126.1 AK225964.1 AK291125.1 AK310919.1 BC008062.2 BT007120.1 X53280.1 X74070.1 

    24/51 DOTS entries (see all 51):

    DT.100890045  DT.100842455  DT.97864272  DT.91711433  DT.415447  DT.100890008  DT.99989204  DT.91776539 
    DT.100890002  DT.91730781  DT.120878609  DT.100045248  DT.100045246  DT.100700480  DT.100890034  DT.121152528 
    DT.91839297  DT.120878611  DT.120909440  DT.120878555  DT.208129  DT.208130  DT.100890018  DT.100890027 

    24/1382 AceView cDNA sequences (see all 1382):

    BQ773000 AA355409 BQ777754 X74070 BU629561 AA434379 T29214 BM791196 
    CB121111 BM975932 CD367112 BQ000604 AA381404 BM474145 CR620679 CK820742 
    BQ286568 BM847463 BM541785 BX359523 CR607270 CA772090 BU156522 AA586421 

    GeneLoc Exon Structure

    5 Alternative Splicing Database (ASD) splice patterns (SP) for BTF3    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b
    SP1:                    -           -                                   -               
    SP2:                                -                                                   
    SP3:                    -           -                                                   
    SP4:                    -           -           -     -                 -               
    SP5:                    -                                                               


    ECgene alternative splicing isoforms for BTF3

    (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

    BTF3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: CTGAGACAAA

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

    About this image

    BTF3 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    Stem Cell Differentiation: 1 LifeMap Cell 
    NameCategory
    Endoderm-like cells (Generation of hepato...)
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization

    See BTF3 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for BTF3

    SOURCE GeneReport for Unigene cluster: Hs.591768
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    In Situ
    Assay Products:
     

     
    Search Advanced Cell Diagnostics for RNAscope RNA in situ hybridization assays for BTF3

    (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 eukaryotes.

    Orthologs for BTF3 gene from 9/34 species (see all 34)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Btf31 , 5 basic transcription factor 31, 5 92.65(n)1
    95.59(a)1
      13 (51.92 cM)5
    2184901  NM_145455.31  NP_663430.21 
     983098965 
    chicken
    (Gallus gallus)
    Aves BTF31 basic transcription factor 3 86.83(n)
    99.38(a)
      426154  XM_423823.3  XP_423823.3 
    lizard
    (Anolis carolinensis)
    Reptilia BTF36
    --
    96(a)
    1 ↔ 1
    2(15928308-15934603)
    African clawed frog
    (Xenopus laevis)
    Amphibia Xl.35362 Xenopus laevis transcribed sequence with strong similarity more 83.38(n)    BJ059914.1 
    zebrafish
    (Danio rerio)
    Actinopterygii btf31 basic transcription factor 3 84.36(n)
    96.91(a)
      556625  NM_001076558.1  NP_001070026.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta bic3 transcription factor 63(a)
    (best of 2)
      2 49D6   --
    worm
    (Caenorhabditis elegans)
    Secernentea C56C10.83 Transcription factor BTF3 (human) 65(a)   II(6587862-6588799)   --
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT1G732306
    BTF36
    basic transcription factor 3
    50(a)
    48(a)
    many ↔ many
    many ↔ many
    1(27540228-27541944)
    1(6152409-6153982)
    rice
    (Oryza sativa)
    Liliopsida AK121674.12   -- 75.15(n)    AK121674.1 


    ENSEMBL Gene Tree for BTF3 (if available)
    TreeFam Gene Tree for BTF3 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for BTF3 gene
    BTF3L42  
    1 SIMAP similar gene for BTF3 using alignment to 3 protein entries:     BTF3_HUMAN (see all proteins):
    BTF3L4

    BTF3 for paralogs           About GeneDecksing


    5/18 Pseudogenes.org Pseudogenes for BTF3 (see all 18)
    PGOHUM00000238915 PGOHUM00000248635 PGOHUM00000247752 PGOHUM00000236912 PGOHUM00000251147


    (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

    10/200 NCBI SNPs in BTF3 are shown (see all 200    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 5 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1469607221,2
    --72792543(+) GCCAGA/GGAAAG 2 -- us2k10--------
    rs1816571241,2
    --72792544(+) CCAGGA/GAAAGT 2 -- us2k10--------
    rs1851236731,2
    --72792718(+) TCCCTA/GGTTTC 2 -- us2k10--------
    rs756763471,2
    F,--72792828(+) AAAAAA/GGGTGG 2 -- us2k11Minor allele frequency- G:0.04WA 118
    rs1895897281,2
    --72792855(+) AATCTC/TGTCTC 2 -- us2k10--------
    rs1813379541,2
    --72792915(+) AATATA/GACATG 2 -- us2k10--------
    rs1861172971,2
    --72792954(+) AAAGAC/TACACA 2 -- us2k10--------
    rs794501591,2
    C--72793011(+) AGAGCA/TCAGCA 2 -- us2k10--------
    rs782562841,2
    C--72793012(+) GAGCAC/TAGCAT 2 -- us2k10--------
    rs768300011,2
    C,F,--72793041(+) TTGGCC/TTTTGT 2 -- us2k11Minor allele frequency- T:0.02WA 118

    HapMap Linkage Disequilibrium report for BTF3 (72794233 - 72801460 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for BTF3: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing BTF3
    DNA2.0 Custom Variant and Variant Library Synthesis for BTF3

    (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

    BTF3 for disorders           About GeneDecksing

    OMIM gene information: 602542    OMIM disorders: --

    11 diseases for BTF3:    About MalaCards
    nonsyndromic deafness    squamous cell carcinoma    lung squamous cell carcinoma    gynecomastia
    burkitt's lymphoma    hepatocellular carcinoma    pancreatic cancer    astrocytoma
    carcinoma    pancreatitis    malaria


    Export disorders for BTF3 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)
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    PubMed articles for BTF3 gene, integrated from 9 sources (see all 39):
    (articles sorted by number of sources associating them with BTF3)
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    1. Genomic structure of the putative BTF3 transcription factor. (PubMed id 1386332)1, 2, 3, 9 Kanno M.... Egly J.-M. (1992)
    2. Sequencing and expression of complementary DNA for the general transcription factor BTF3. (PubMed id 2320128)1, 2, 3 Zheng X.M.... Egly J.-M. (1990)
    3. Translation initiation factor (iso) 4E interacts with BTF3, the beta subunit of the nascent polypeptide-associated complex. (PubMed id 15716105)1, 3 Freire M.A. (2005)
    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. Basic transcription factor 3 (BTF3) regulates transcription of tumor- associated genes in pancreatic cancer cells. (PubMed id 17312387)1, 9 Kusumawidjaja G.... Kleeff J. (2007)
    6. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
    7. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    8. A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
    9. Proteome-wide identification of ubiquitylation sites b y conjugation of engineered lysine-less ubiquitin. (PubMed id 22053931)1 Oshikawa K....Nakayama K.I. (2012)
    10. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 689 HGNC: 1125 AceView: BTF3 Ensembl:ENSG00000145741 euGenes: HUgn689
    ECgene: BTF3 H-InvDB: BTF3

    (According to HUGE)
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      --

    (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 BTF3 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for BTF3 gene:
    Search GeneIP for patents involving BTF3

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



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