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

YIF1A Gene

protein-coding   GIFtS: 51
GCID: GC11M066052

Yip1 Interacting Factor Homolog A (S. Cerevisiae)

(Previous name: Yip1 interacting factor homolog (S. cerevisiae))
(Previous symbol: YIF1)
  Search for YIF1A
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
Yip1 Interacting Factor Homolog A (S. Cerevisiae)1 2     YIF1P2
YIF11 2 3 5     Protein YIF1A2
54TM2 3     Putative Rab5-Interacting Protein2
54TMp2 3     Putative Transmembrane Protein 54TMp2
YIP1-Interacting Factor Homolog A2 3     Yip1p-Interacting Factor2
Yip1 Interacting Factor Homolog (S. Cerevisiae)1     HYIF1P3
FinGER72     

External Ids:    HGNC: 166881   Entrez Gene: 108972   Ensembl: ENSG000001748517   OMIM: 6114845   UniProtKB: O950703   

Export aliases for YIF1A gene to outside databases

Previous GC identifers: GC11M065809 GC11M062434


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for YIF1A Gene: 
YIF1A (Yip1 interacting factor homolog A (S. cerevisiae)) is a protein-coding gene. Among its related super-pathways are Activation of Chaperones by IRE1alpha and Post-translational protein modification. GO annotations related to this gene include protein binding. An important paralog of this gene is YIF1B.

UniProtKB/Swiss-Prot: YIF1A_HUMAN, O95070
Function: Possible role in transport between endoplasmic reticulum and Golgi

Gene Wiki entry for YIF1A 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_000011.9  NT_167190.1  NC_018922.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the YIF1A gene promoter:
         AhR   NRSF form 1   Tal-1beta   NRSF form 2   Arnt   E47   RORalpha2   c-Ets-1   PPAR-gamma1   Ik-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidYIF1A promoter sequence
   Search SABiosciences Chromatin IP Primers for YIF1A

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat YIF1A


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

Entrez Gene cytogenetic band: 11q13   Ensembl cytogenetic band:  11q13.2   HGNC cytogenetic band: 11q13

YIF1A Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
YIF1A gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M066052:  view genomic region     (about GC identifiers)

Start:
66,052,051 bp from pter      End:
66,056,641 bp from pter
Size:
4,591 bases      Orientation:
minus 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: YIF1A_HUMAN, O95070 (See protein sequence)
Recommended Name: Protein YIF1A  
Size: 293 amino acids; 32011 Da
Subunit: Interacts with YIPF5
Subcellular location: Endoplasmic reticulum membrane; Multi-pass membrane protein. Golgi apparatus membrane;
Multi-pass membrane protein. Note=Cycles between the endoplasmic reticulum and the endoplasmic reticulum-Golgi
intermediate compartment
Secondary accessions: A6NM00 Q96G83 Q9BVD0

Explore the universe of human proteins at neXtProt for YIF1A: NX_O95070

Explore proteomics data for YIF1A at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_O95070

  • YIF1A Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    YIF1A Protein Expression
    REFSEQ proteins: NP_065203.2  
    ENSEMBL proteins: 
     ENSP00000432185   ENSP00000437042   ENSP00000352437   ENSP00000366098   ENSP00000431665  
     ENSP00000401953   ENSP00000431935  
    Reactome Protein details: O95070
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    Cloud-Clone Corp. Proteins for YIF1A 

    Gene Ontology (GO): 5/8 cellular component terms (GO ID links to tree view) (see all 8):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000139Golgi membrane IEA--
    GO:0005789endoplasmic reticulum membrane TAS--
    GO:0005793endoplasmic reticulum-Golgi intermediate compartment IDA15308636
    GO:0005794Golgi apparatus IDA--
    GO:0005813centrosome IDA--

    YIF1A 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:
     IPR005578 Hrf1

    Graphical View of Domain Structure for InterPro Entry O95070

    ProtoNet protein and cluster: O95070

    UniProtKB/Swiss-Prot: YIF1A_HUMAN, O95070
    Similarity: Belongs to the YIF1 family


    YIF1A 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: YIF1A_HUMAN, O95070
    Function: Possible role in transport between endoplasmic reticulum and Golgi

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--
         
    YIF1A for ontologies           About GeneDecksing


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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

    SuperPaths for YIF1A About                                                                                                See pathways by source

    SuperPathContained pathways About
    1Activation of Chaperone Genes by XBP1(S)
    Activation of Chaperones by IRE1alpha0.94
    Unfolded Protein Response0.76
    Activation of Chaperone Genes by XBP1(S)0.94
    2Asparagine N-linked glycosylation
    Metabolism of proteins0.35

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways



    4        Reactome Pathways for YIF1A
        Activation of Chaperone Genes by XBP1(S)
    Metabolism of proteins
    Activation of Chaperones by IRE1alpha
    Unfolded Protein Response



    YIF1A for pathways           About GeneDecksing

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for YIF1A

    STRING Interaction Network Preview (showing 5 interactants - click image to see 6)

    5/8 Interacting proteins for YIF1A (O950701, 2, 3 ENSP000003660984) via UniProtKB, MINT, STRING, and/or I2D (see all 8)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CDK2AP2O759562, 3, ENSP000003014884MINT-8251304 I2D: score=2 STRING: ENSP00000301488
    SLC34A1Q064953, ENSP000003214244I2D: score=2 STRING: ENSP00000321424
    YIPF5Q969M33, ENSP000002744964I2D: score=1 STRING: ENSP00000274496
    MLST8Q9BVC43I2D: score=1 
    ATP13A2Q9NQ111EBI-2799703,EBI-6308763
    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:0006987activation of signaling protein activity involved in unfolded protein response TAS--
    GO:0015031protein transport IEA--
    GO:0016192vesicle-mediated transport IEA--
    GO:0030968endoplasmic reticulum unfolded protein response TAS--
    GO:0044267cellular protein metabolic process TAS--

    YIF1A 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
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for YIF1A

    Search CenterWatch for drugs/clinical trials and news about YIF1A

    (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,
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    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 YIF1A gene: 
    NM_020470.2  

    Unigene Cluster for YIF1A:

    Yip1 interacting factor homolog A (S. cerevisiae)
    Hs.446445  [show with all ESTs]
    Unigene Representative Sequence: AK310521
    13 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000496746 ENST00000485820 ENST00000526497 ENST00000471387 ENST00000359461
    ENST00000376901(uc001ohk.4) ENST00000494836 ENST00000484814 ENST00000431556
    ENST00000528575 ENST00000376899(uc009yrc.3) ENST00000474986 ENST00000534374

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    Additional mRNA sequence: 

    AF004876.1 AK226003.1 AK291124.1 AK308988.1 AK310521.1 AK311173.1 BC001299.1 BC009892.2 
    CR456710.1 S83365.1 

    15 DOTS entries:

    DT.417394  DT.97847847  DT.100792493  DT.100792487  DT.91888989  DT.100792475  DT.100693503  DT.100792486 
    DT.100792480  DT.95344941  DT.97847849  DT.100792482  DT.120735076  DT.99943691  DT.120735056 

    24/362 AceView cDNA sequences (see all 362):

    CA423814 CA941011 BQ648541 CA489035 BQ219362 BI962834 BU077883 CB106580 
    BM998214 AA826583 CR614462 BU542875 BM995628 CF128449 CR598403 CR615524 
    CD676198 BF969135 AA126629 BU752078 CF130385 AL044257 CK903519 BC009892 

    GeneLoc Exon Structure

    5/7 Alternative Splicing Database (ASD) splice patterns (SP) for YIF1A (see all 7)    About this scheme

    ExUns: 1a · 1b · 1c ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6 ^ 7a · 7b · 7c · 7d ^ 8a · 8b ^ 9a · 9b · 9c
    SP1:                          -                 -     -           -     -                                             
    SP2:                          -                 -     -           -     -     -     -                                 
    SP3:                          -                 -     -           -                                                   
    SP4:                                            -                 -     -     -     -                                 
    SP5:                          -     -                                                                                 


    ECgene alternative splicing isoforms for YIF1A

    (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

    YIF1A expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GGGGGCCCCG
    YIF1A Expression
    About this image


    See YIF1A Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for YIF1A

    SOURCE GeneReport for Unigene cluster: Hs.446445
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    In Situ
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    (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 animals and fungi.

    Orthologs for YIF1A gene from 6/16 species (see all 16)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Yif1a1 , 5 Yip1 interacting factor homolog A (S. cerevisiae)1, 5 88.17(n)1
    92.49(a)1
      19 (4.24 cM)5
    680901  NM_026553.41  NP_080829.11 
     50885385 
    lizard
    (Anolis carolinensis)
    Reptilia YIF1A6
    Uncharacterized protein
    62(a)
    1 ↔ 1
    GL343519.1(786-6086)
    zebrafish
    (Danio rerio)
    Actinopterygii wufa11c092 wufa11c09 74.91(n)   334982  BC046046.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG54846
    --
    27(a)
    1 → many
    3R(22543570-22545529)
    worm
    (Caenorhabditis elegans)
    Secernentea yif-11 Protein YIF-1 45.47(n)
    38.87(a)
      179400  NM_001047661.2  NP_001041126.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes YIF11 Yif1p 44.17(n)
    38.04(a)
      855458   NP_014136.1 


    ENSEMBL Gene Tree for YIF1A (if available)
    TreeFam Gene Tree for YIF1A (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for YIF1A gene
    YIF1B2  
    1 SIMAP similar gene for YIF1A using alignment to 8 protein entries:     YIF1A_HUMAN (see all proteins):
    YIF1B

    YIF1A 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

    10/127 SNPs in YIF1A are shown (see all 127)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1997928881,2
    C--66052197(+) CTGCCA/GGGGGA 2 R W mis10--------
    rs2008601991,2
    --66052222(+) CTGTCA/GGGGCC 2 P syn10--------
    rs1409701991,2
    C,F--66052251(+) AGAGCG/ACACCT 2 /R /C mis11Minor allele frequency- A:0.00NA 3822
    rs1408689231,2
    C--66052339(+) CCAGAC/TTCACA 1 -- int10--------
    rs119571,2
    C--66052358(+) CATGAG/ACGCCG 2 /L /F mis1 ese33Minor allele frequency- A:0.00EA NA 176
    rs2002666981,2
    C--66052417(+) GCCCCG/ATGAGC 2 /T /M mis11Minor allele frequency- A:0.00EU 1323
    rs1489075091,2
    C--66052424(+) GAGCAC/TACTGA 2 M V mis11Minor allele frequency- T:0.00NA 4534
    rs1470054941,2
    F--66052425(+) AGCACA/GCTGAG 2 S syn11Minor allele frequency- G:0.00NA 4534
    rs22825671,2
    C,F,H--66052635(+) GACCCC/ACTTCT 1 -- int1 trp310Minor allele frequency- A:0.05NS EA NA 1250
    rs575797411,2
    C,F--66052636(+) ACCCCC/TTTCTC 1 -- int12Minor allele frequency- T:0.14NA EA 240

    HapMap Linkage Disequilibrium report for YIF1A (66052051 - 66056641 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 5 variations for YIF1A:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv897772CNV Loss21882294
    dgv1187n71CNV Loss21882294
    nsv897779CNV Loss21882294
    dgv1188n71CNV Loss21882294
    nsv825956CNV Gain20364138

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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

    YIF1A for disorders           About MalaCards
    OMIM gene information: 611484    OMIM disorders: --


    YIF1A for disorders           About GeneDecksing


    Export disorders for YIF1A 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 YIF1A gene, integrated from 9 sources (see all 24):
    (articles sorted by number of sources associating them with YIF1A)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. YIPF5 and YIF1A recycle between the ER and the Golgi apparatus and are involved in the maintenance of the Golgi structure. (PubMed id 18718466)1, 3 Yoshida Y....Nakamura N. (2008)
    2. Human Yip1A specifies the localization of Yif1 to the Golgi apparatus. (PubMed id 15990086)1, 2 Jin C.... Yao X. (2005)
    3. 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)
    4. Proteomics of endoplasmic reticulum-Golgi intermediate compartment (ERGIC) membranes from brefeldin A-treated HepG2 cells identifies ERGIC-32, a new cycling protein that interacts with human Erv46. (PubMed id 15308636)1, 2 Breuza L....Hauri H.P. (2004)
    5. A novel Golgi membrane protein is part of a GTPase-binding protein complex involved in vesicle targeting. (PubMed id 10970842)1, 3 Matern H....Gallwitz D. (2000)
    6. The GDP/GTP cycle of Rab5 in the regulation of endocytotic membrane traffic. (PubMed id 8824393)1, 3 Vitale G.... Zerial M. (1995)
    7. Identification of novel ATP13A2 interactors and their role in a-synuclein misfolding and toxicity. (PubMed id 22645275)1 Usenovic M....Krainc D. (2012)
    8. Identification of VKORC1 interaction partners by spli t-ubiquitin system and coimmunoprecipitation. (PubMed id 21103663)1 Schaafhausen A....MA1ller C.R. (2011)
    9. Large-scale genome-wide association analysis of bipol ar disorder identifies a new susceptibility locus near ODZ4. (PubMed id 21926972)1 Sklar P....Purcell S.M. (2011)
    10. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 10897 HGNC: 16688 AceView: YIF1 Ensembl:ENSG00000174851 euGenes: HUgn10897
    ECgene: YIF1A H-InvDB: YIF1A

    (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 YIF1A 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 YIF1A gene:
    Search GeneIP for patents involving YIF1A

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



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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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