V3 here soon-try beta now
Gene Search (GeneCards Home) | GeneCards Guide | User Feedback | Terms of Use | Notice about third-party sites
 

YIPF3 Gene

protein-coding   GIFtS: 49

GC06M043588
Yip1 domain family, member 3
(Previous name: chromosome 6 open reading frame 109 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: C6orf109)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
C6orf109 2, 3
DKFZp566C243 1, 2
FinGER3 1, 2
KLIP1 1, 2, 3, 5
OTTHUMP00000039825 2
dJ337H4.3 1, 2
Descriptions
Killer lineage protein 1 2, 3
Natural killer cell-specific antigen KLIP1 2, 3
YIP1 family member 3 3
Yip1 domain family, member 3 2
chromosome 6 open reading frame 109 1
External Ids
HGNC: 210231
Entrez Gene: 258442
UniProtKB: Q9GZM53
Ensembl: ENSG000001372077
Search outside databases for aliases for YIPF3 gene

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

UniProtKB/Swiss-Prot: YIPF3_HUMAN, Q9GZM5
Function: May play a role in hematopoiesis

Gene Wiki entry for YIPF3

(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 YIPF3 gene  

Entrez Gene cytogenetic band: 6p21.1   Ensembl cytogenetic band:  6p21.1   HGNC cytogenetic band: 6p21.1

YIPF3 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 6         GeneLoc Exon Structure

GeneLoc location for GC06M043588:     (about GC identifiers)

Start:
43,587,543 bp from pter
End:
43,592,701 bp from pter
Size:
5,159 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000006.10  NT_007592.14  
(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)
About This Section

UniProtKB/Swiss-Prot: YIPF3_HUMAN, Q9GZM5 (See protein sequence)
Recommended Name: Protein YIPF3  
Size: 350 amino acids; 38248 Da
Subcellular location: Cell membrane; Multi-pass membrane protein. Cytoplasm. Note=Localization to
the cytoplasm or to the cell membrane is developmentally and ontogenetically regulated
Developmental stage: Expressed in fetal liver (at protein level). Expressed in embryonic
hematopoiesis sites
Sequence caution: Sequence=CAI42626.1; Type=Erroneous gene model prediction;
Secondary accessions: Q5JTD2 Q6FI85 Q8NI57 Q9NWE3 Q9Y3U9

Post-translational modifications:

  • Not glycosylated1


  • REFSEQ proteins: NP_056203.2  

    ENSEMBL proteins: 
    ENSP00000259737 ENSP00000361494 ENSP00000361499 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Browse Abcam for Recombinant Proteins
    Human Recombinant Proteins from Abnova (YIPF3)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    4 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737 cytoplasm IEA--
    GO:0005886 plasma membrane IEA--
    GO:0016021 integral to membrane IEA--
    GO:0030133 transport vesicle IDA11256614
    About this table

    Antibodies for YIPF3: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for YIPF3
    Browse R&D Systems for Antibodies
    Search for antibodies at Abcam and the World's Antibody Gateway (free search engine of over 150 antibody companies)
    Browse Abnova for Monoclonal and Polyclonal Antibodies
    Search Novus for antibodies for YIPF3

    Assays for YIPF3: 
    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

    1 InterPro domain/family:
     IPR006977 Yip1


       GeneDecks  YIPF3 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q9GZM5

    ProtoNet protein and cluster: Q9GZM5

    UniProtKB/Swiss-Prot: YIPF3_HUMAN, Q9GZM5
    Similarity: Belongs to the YIP1 family

    (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 (YIPF3)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_015388

                  Applied Biosystems Silencer® siRNAs for YIPF3

                  Sigma-Aldrich siRNA for YIPF3  
                         Sigma-Aldrich shRNA for YIPF3  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for YIPF3
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_015388
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_015388
                                     untagged cDNA clone in CMV expression vector: NM_015388 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_015388

    UniProtKB/Swiss-Prot: YIPF3_HUMAN, Q9GZM5
    Function: May play a role in hematopoiesis

    (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



    3 Interacting proteins for YIPF3 (ENSP000002597373) via UniProtKB, MINT, and/or STRING
    InteractantInteraction Details
    GeneCardExternal ID(s)
    PAX2ENSP000003593173STRING (score=.758)
    SYNPOENSP000003152893STRING (score=.746)
    WT1ENSP000003313273STRING (score=.714)
    About this table

    1 Gene Ontology (GO) biological process term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0030154 cell differentiation IEA--
    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 YIPF3

    (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 (YIPF3)
    Browse for Gene Knock-down Tools from Millipore
    Browse Abnova for Chimera RNAi Products
                  OriGene 29mer shRNA kit in GFP-retroviral vector: NM_015388

                  Sigma-Aldrich siRNA for YIPF3  
                         Sigma-Aldrich shRNA for YIPF3  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_015388  

    REFSEQ mRNAs for YIPF3 gene: 

    NM_015388.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_015388  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_015388
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_015388
                                     untagged cDNA clone in CMV expression vector: NM_015388 

    Additional cDNA sequence: 

    AF162672.1 AK000946.1 AK021433.1 AK021655.1 AK022757.1 AK298150.1 AK308961.1 AL050274.1 
    BC019297.1 CR533541.1 CR590349.1 CR590752.1 CR592266.1 CR595236.1 CR596249.1 CR596581.1 
    CR597677.1 CR598162.1 CR599615.1 CR601987.1 CR602267.1 CR603202.1 CR603408.1 CR606024.1 
    CR607768.1 CR610470.1 CR610983.1 CR611260.1 CR611748.1 CR612415.1 CR615118.1 CR615153.1 
    CR615623.1 CR616384.1 CR616987.1 CR618212.1 CR619054.1 CR619437.1 CR619816.1 CR621993.1 
    CR622532.1 CR622890.1 CR623137.1 

    24/28 DOTS entries (see all 28 ):

    DT.75111219  DT.100757794  DT.100883220  DT.121405535  DT.99995562  DT.121405526  DT.97768547  DT.97860216 
    DT.100883226  DT.121405802  DT.121405815  DT.100883230  DT.121405362  DT.121405354  DT.100031673  DT.95134767 
    DT.100883241  DT.100883243  DT.121405547  DT.121405548  DT.86846320  DT.87016652  DT.95134790  DT.95134846 

    24/560 AceView cDNA sequences (see all 560 ):

    BI766072 CR601987 BQ937554 BU556848 AU126250 BM008902 BU957642 BM836904 
    CR596581 CB119124 CR590752 BI915653 CA308984 BI756054 CR622532 BI829576 
    CR598162 CB117693 BM698074 CD368003 BE276188 BX334763 BG819128 BG742051 

    highest scoring ESTs for YIPF3:

    AL050274 AA599418 AF162672 AI816224 AK000946 AK021655 AK022757 AL521342 AL559468 AU116955 

    Unigene Cluster for YIPF3:

    Yip1 domain family, member 3
    Hs.440950  [show with all ESTs]
    Unigene Representative Sequence: AK021433


    GeneLoc Exon Structure

    5/15 Alternative Splicing Database (ASD) splice patterns (SP) for YIPF3 (see all 15 )

    ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6a · 6b · 6c ^ 7a · 7b ^ 8 ^ 9 ^ 10a · 10b ^
    SP1:                                      -     -     -     -                                   -     -     -           -                                       
    SP2:                                                                                            -     -     -           -                                       
    SP3:                                      -     -                                               -     -     -           -                                       
    SP4:                                      -     -     -     -     -                             -     -     -           -                                       
    SP5:                                      -     -                                               -     -     -           -                                       

    ExUns: 11a · 11b ^ 12
    SP1:                  
    SP2:                  
    SP3:                  
    SP4:                  
    SP5:                  

    About this scheme

    ECgene alternative splicing isoforms for YIPF3

    3 Ensembl transcripts including schematic representations:
    ENST00000259737  ENST00000372417  ENST00000372422  
    (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

    YIPF3 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for YIPF3

    1 / 2 / 3

    3 probe-sets matching YIPF3 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    38697_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 AL050274 1.00 1.00 1.00 1

    216338_s_at2, 3 U133-A 1 1.00 1.00 -- -- AK021433 0.60 1.00 0.82 1

    216338_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  YIPF3 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: TTTCGTAGAT

    SOURCE GeneReport for Unigene cluster: Hs.440950

    Expression variation in blood from EXPOLDB for YIPF3

    UniProtKB/Swiss-Prot: YIPF3_HUMAN, Q9GZM5
    Tissue specificity: Expressed by nucleated hematopoietic cells (at protein level)

    (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 YIPF3 gene from 5/9 species (see all 9 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    YIPF31   -- Yip1 domain family, member 3 92.7(n)
    97.98(a)
    481817  XM_538938.2  XP_538938.2 
    chimpanzee
    (Pan troglodytes)
    YIPF31   -- Yip1 domain family, member 3 99.71(n)
    99.71(a)
    472240  XM_001138787.1  XP_001138787.1 
    cow
    (Bos taurus)
    YIPF31   -- Yip1 domain family, member 3 92.41(n)
    98.27(a)
    540431  NM_001076219.1  NP_001069687.1 
    rat
    (Rattus norvegicus)
    Yipf31   -- Yip1 domain family, member 3 89.63(n)
    96.25(a)
    301245  NM_001007801.2  NP_001007802.1 
    mouse
    (Mus musculus)
    Yipf31, 5 17 (24.00 cM)5
    Yip1 domain family, member 31, 5 89.82(n)1
    97.12(a)1
    280641  NM_145353.11  NP_663328.11 
     AA4098745  AF1979315  (see all 16)
    About this table        Species with no ortholog for YIPF3

    ENSEMBL Gene Tree for YIPF3
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

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


    6 NCBI SNPs in YIPF3 are shown
    (Click for Applied Biosystems TaqMan ® Genotyping Assay) (only AB snps)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 6 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    --
    rs115590611,2
    H43588524(-) CCCTCT/CTCTAC 1 L/F mis1 ese34Minor allele frequency- C:0.00EU EA WA 404
    rs22317671,2
    C,F43589099(-) CATGGG/AATGAA 1 G/G syn11Minor allele frequency- A:0.03NA 76
    --
    rs126646651,2
    C43590743(+) tcactC/Ttgttg 1 -- int10--------
    --
    rs350124981,2
    --43588589(+) CATAG-/CCCTGG 1 G/ fra10--------
    --
    rs412818161,2
    --43588803(+) ATCTGC/TAGCAT 1 L/L syn10--------
    rs354734031,2
    --43588800(+) AACATC/TTGCAG 1 Q/Q syn11Minor allele frequency- T:0.02NA 44
    About this table
    The following additional 37 SNP(s) have been found in Applied Biosystems data source:
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)


     rs2282412 rs2231758 rs2231772 rs61745287 rs34566374 rs11077 rs2227301
     rs2257082 rs2231762 rs9394956 rs2231757 rs2231756 rs9369413 rs61746795
     rs6924483 rs7746420 rs2231771 rs61745288 rs61745290 rs12399 rs1127166
     rs7743244 rs1063820 rs61746927 rs2231761 rs3734689 rs2231755 rs2231769
     rs9472069 rs3177164 rs2231770 rs2231768 rs2231763 rs11544826 rs2242242
     rs12200863 rs7759854

    HapMap Linkage Disequilibrium images for YIPF3 (up to first 250kb)

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

    OMIM: 609775

    (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

    10/11 PubMed articles for YIPF3 gene (see all 11 ):
    (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: 25844 HGNC: 21023 AceView: C6orf109 Ensembl:ENSG00000137207 euGenes: HUgn25844
    ECgene: YIPF3 H-InvDB: YIPF3
    (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

      --
    (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 YIPF3:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



      Invitrogen iPath Pathways  Invitrogen BLOCK-iT™ RNAi
      Invitrogen Antibodies  Invitrogen Assays
      Invitrogen Clones  Invitrogen Q-PCR Products
      Invitrogen Human Recombinant Kinases  Invitrogen Custom Antibody and Peptide Service
      Invitrogen Proteins / Assays / Screening Services  Search Invitrogen catalog for YIPF3-related products

     Millipore Custom Antibody & Bulk Services
     Millipore Preclinical / Clinical Development Services
     Millipore Immunoassay Services
     Millipore Target Screening & Profiling Services


     Predesigned and custom siRNAs for YIPF3 Antibodies for YIPF3
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for YIPF3 Browse small molecules at Sigma-Aldrich
     "Your Favorite Gene" Pathwaysfeedback


      
     Antibodies   Primer Pairs  
     Cell Culture Products   ELISAs  
     Flow Cytometry Kits   Protease Activity Assays & Reagents  
     Cell Selection/Detection Kits & Reagents   ELISA/Assay Development Kits & Reagents  
     Multiplex/Array Assay Kits & Reagents   ELISpot Kits & Development Modules  
     Recombinant & Natural Proteins  

     Recombinant Proteins (YIPF3)
     Search for Antibodies
     Search for Chimera RNAi
     Custom Service for Mouse Mab
     Custom Service for Rabbit Pab from Full-length Protein
      
     Search for Antibodies & Assays

     Search for Recombinant Proteins
     Search for Antibodies
     Search OriGene for YIPF3
     Search Tocris compounds for YIPF3




     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Search Novus for antibodies for YIPF3

    GeneCards Homepage    -    Last full update: 2 Jul 2009        Incremental update: 13 Oct 2009

    Random Gene From GIFtS : about GIFtS

    Gene Index:   3   5   A   B   C   D   E   F   G   H   I   J   K   L   M   N   O   P   Q   R   S   T   U   V   W   X   Y   Z

    Developed at the Crown Human Genome Center & Weizmann Institute of Science



    The GeneCards Human Gene Database: Copyright © 1996-2009, Weizmann Institute of Science. All Rights Reserved.
    YIPF3 Gene at Home site.
    Version 2.41.1
    server5.xennexinc.com