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FLYWCH1 Gene

protein-coding   GIFtS: 48
GCID: GC16P002961

FLYWCH-Type Zinc Finger 1

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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
FLYWCH-Type Zinc Finger 11 2
FLYWCH-Type Zinc Finger-Containing Protein 12
KIAA15523

External Ids:    HGNC: 254041   Entrez Gene: 842562   Ensembl: ENSG000000591227   UniProtKB: Q4VC443   

Export aliases for FLYWCH1 gene to outside databases

Previous GC identifers: GC16P002902 GC16P002935


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for FLYWCH1 Gene:
FLYWCH1 (FLYWCH-type zinc finger 1) is a protein-coding gene. An important paralog of this gene is FLYWCH2.


(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000016.9  NT_010393.17  NC_018927.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the FLYWCH1 gene promoter:
         CREB   Spz1   Elk-1   deltaCREB   HSF1short   HSF1 (long)   LUN-1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidFLYWCH1 promoter sequence
   Search Chromatin IP Primers for FLYWCH1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat FLYWCH1


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

Entrez Gene cytogenetic band: 16p13.3   Ensembl cytogenetic band:  16p13.3   HGNC cytogenetic band: 16p13.3

FLYWCH1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
FLYWCH1 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16P002961:  view genomic region     (about GC identifiers)

Start:
2,961,938 bp from pter      End:
3,001,209 bp from pter
Size:
39,272 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: FWCH1_HUMAN, Q4VC44 (See protein sequence)
Recommended Name: FLYWCH-type zinc finger-containing protein 1  
Size: 716 amino acids; 80108 Da
Sequence caution: Sequence=BAB13378.1; Type=Erroneous initiation; Note=Translation N-terminally shortened;
1 PDB 3D structure from and Proteopedia for FLYWCH1:
2RPR (3D)    
Secondary accessions: D3DUA1 Q6ZSQ1 Q8WV62 Q9BQG6 Q9BUS5 Q9HCM0
Alternative splicing: 5 isoforms:  Q4VC44-1   Q4VC44-2   Q4VC44-3   Q4VC44-4   Q4VC44-5   

Explore the universe of human proteins at neXtProt for FLYWCH1: NX_Q4VC44

Explore proteomics data for FLYWCH1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See FLYWCH1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (2 alternative transcripts): 
    NP_065963.1  NP_115672.2  

    ENSEMBL proteins: 
     ENSP00000253928   ENSP00000399938   ENSP00000458282   ENSP00000459326   ENSP00000458661  
     ENSP00000344122   ENSP00000461566   ENSP00000458689   ENSP00000459480   ENSP00000382575  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    FLYWCH: Zinc fingers

    1 InterPro protein domain:
     IPR007588 Znf_FLYWCH

    Graphical View of Domain Structure for InterPro Entry Q4VC44

    ProtoNet protein and cluster: Q4VC44

    UniProtKB/Swiss-Prot: FWCH1_HUMAN, Q4VC44
    Similarity: Contains 5 FLYWCH-type zinc fingers


    Find genes that share domains with FLYWCH1           About GenesLikeMe


    (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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003677DNA binding IEA--
    GO:0046872metal ion binding IEA--
         
    Find genes that share ontologies with FLYWCH1           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for FLYWCH1:
     Synthetic lethal with Ras 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for FLYWCH1
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    miRNA
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    miRTarBase miRNAs that target FLYWCH1:
    hsa-mir-92a-3p (MIRT049470), hsa-mir-335-5p (MIRT017432)

    Block miRNA regulation of human, mouse, rat FLYWCH1 using miScript Target Protectors
    1 qRT-PCR Assays for microRNA that regulate FLYWCH1:
    hsa-miR-29b-1*
    SwitchGear 3'UTR luciferase reporter plasmidFLYWCH1 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat FLYWCH1

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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for FLYWCH1


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    FWCH1_HUMAN, Q4VC44: Nucleus (Probable)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol4
    nucleus4
    mitochondrion1

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--

    Find genes that share ontologies with FLYWCH1           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for FLYWCH1
    Interactions:

        Search GeneGlobe Interaction Network for FLYWCH1

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    4 Interacting proteins for FLYWCH1 (Q4VC443 ENSP000003999384) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    ERBB3P218603, ENSP000002671014I2D: score=3 STRING: ENSP00000267101
    SETDB1Q150473I2D: score=4 
    KBTBD7Q8WVZ93I2D: score=1 
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for FLYWCH1 (FWCH1)



    (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,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for FLYWCH1 gene (2 alternative transcripts): 
    NM_020912.1  NM_032296.2  

    Unigene Cluster for FLYWCH1:

    FLYWCH-type zinc finger 1
    Hs.655321  [show with all ESTs]
    Unigene Representative Sequence: NM_032296
    15 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000253928(uc002csb.3 uc002csc.3 uc002csd.3 uc002cse.3)
    ENST00000571140 ENST00000416288 ENST00000570425 ENST00000573525 ENST00000570759
    ENST00000573564 ENST00000344592 ENST00000571580 ENST00000575604 ENST00000570752
    ENST00000574985 ENST00000571983 ENST00000575679 ENST00000399667(uc010bsv.3)

    miRNA
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    1 qRT-PCR Assays for microRNA that regulate FLYWCH1:
    hsa-miR-29b-1*
    SwitchGear 3'UTR luciferase reporter plasmidFLYWCH1 3' UTR sequence
    Inhib. RNA
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      QuantiTect SYBR Green Assays in human, mouse, rat FLYWCH1
      QuantiFast Probe-based Assays in human, mouse, rat FLYWCH1

    Additional mRNA sequence: 

    AB046772.1 AK026885.1 AK092434.1 AL136585.1 BC001973.1 BC018712.1 BC028572.1 

    9 DOTS entries:

    DT.211342  DT.100791607  DT.95171907  DT.40286968  DT.95080341  DT.97847195  DT.75197110  DT.100018205 
    DT.120670877 

    Selected AceView cDNA sequences (see all 298):

    CD672242 BM669271 AA401452 CD675307 BM705997 AA284150 BM918403 BQ435088 
    BQ636068 BX355080 BM693039 BC018712 CD671260 CD722400 BM784140 BM562651 
    CR601271 CA454125 BC001973 BM667967 BM549378 BM661807 BU857650 CD672241 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for FLYWCH1 (see all 6)    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11a · 11b ^ 12a · 12b
    SP1:                          -           -                                               -                       -               
    SP2:                          -           -                                               -                       -               
    SP3:                                                                                      -                                       
    SP4:                                                                                                              -               
    SP5:                                      -                                                                                       


    ECgene alternative splicing isoforms for FLYWCH1

    (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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    FLYWCH1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CACTGCAAGG
    FLYWCH1 Expression
    About this image


    FLYWCH1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 5) fully expand
     
     Brain (Nervous System)    fully expand to see all 4 entries
             Cerebral Cortex
     
     Trophoblast (Extraembryonic Tissues)
             Trophoblast Cells Trophoblast
     
     Pancreas (Endocrine System)
             Islets of Langerhans
     
     Testis (Reproductive System)
             Leydig Cells Testis Interstitium
     
     Bone (Muscoskeletal System)
             Bone Marrow
    FLYWCH1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    FLYWCH1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.655321
        Custom PCR Arrays for FLYWCH1
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    In Situ
    Assay Products:
     

     
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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)
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    This gene was present in the common ancestor of human and mouse.

    Orthologs for FLYWCH1 gene from Selected species (see all 6)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Flywch11 , 5 FLYWCH-type zinc finger 11, 5 76.44(n)1
    72.85(a)1
      17 (12.04 cM)5
    2246131  NM_153791.21  NP_722486.21 
     237554235 


    ENSEMBL Gene Tree for FLYWCH1 (if available)
    TreeFam Gene Tree for FLYWCH1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for FLYWCH1 gene
    FLYWCH22  
    1 SIMAP similar gene for FLYWCH1 using alignment to 8 protein entries:     FWCH1_HUMAN (see all proteins):
    FLYWCH2

    Find genes that share paralogs with FLYWCH1           About GenesLikeMe


    1 Pseudogenes.org Pseudogene for FLYWCH1
    PGOHUM00000237881


    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for FLYWCH1 (see all 1406)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1504106871,2
    C--2960105(+) GCTGCC/TCAGGA 2 -- us2k10--------
    rs1852836091,2
    --2960389(+) CATCAC/GCACAT 2 -- us2k10--------
    rs1902002001,2
    --2960434(+) TTCTGC/TAGAGA 2 -- us2k10--------
    rs1451852941,2
    C--2960476(+) CAAACG/TCCTGG 2 -- us2k10--------
    rs1169331631,2
    C,F--2960479(+) ACTCCT/CGGGCT 2 -- us2k11Minor allele frequency- C:0.10NA 120
    rs1136633291,2
    C,F--2960490(+) CAAACG/AATGCT 2 -- us2k12Minor allele frequency- A:0.19WA 120
    rs1815014871,2
    --2960509(+) AGCCTA/CCCAAA 2 -- us2k10--------
    rs1847162311,2
    --2960525(+) GGGATA/TACAAG 2 -- us2k10--------
    rs772645081,2
    C,F--2960578(+) TGCTAT/CGCTAA 2 -- us2k11Minor allele frequency- C:0.02WA 118
    rs1892146301,2
    --2960596(+) CGAAAG/TAAGTC 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for FLYWCH1 (2961938 - 3001209 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for FLYWCH1 (see all 20):    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2750387CNV Deletion23290073
    esv2667921CNV Deletion23128226
    esv2671794CNV Deletion23128226
    nsv509588CNV Insertion20534489
    nsv905165CNV Loss21882294
    nsv510673CNV Loss20534489
    nsv819421CNV Loss19587683
    nsv905152CNV Loss21882294
    nsv905185CNV Loss21882294
    nsv833124CNV Loss17160897

    Site Specific Mutation Identification with PCR Assays
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    (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.)
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      --

    (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 FLYWCH1 gene, integrated from 10 sources (see all 16):
    (articles sorted by number of sources associating them with FLYWCH1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (Genome Res. 2001)
    2. Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PubMed id 10997877)1, 2, 3 Nagase T.... Ohara O. (DNA Res. 2000)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. Pathway Analysis of ChIP-Seq-Based NRF1 Target Genes Suggests a Logical Hypothesis of their Involvement in the Pathogenesis of Neurodegenerative Diseases. (PubMed id 24250222)1 Satoh J....Yamamoto Y. (Gene Regul Syst Bio 2013)
    5. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)
    6. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PubMed id 20068231)2 Olsen J.V....Mann M. (Sci. Signal. 2010)
    7. Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach. (PubMed id 19413330)2 Gauci S....Mohammed S. (Anal. Chem. 2009)
    8. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (EMBO J. 2009)
    9. Toward a confocal subcellular atlas of the human proteome. (PubMed id 18029348)1 Barbe L....Andersson-Svahn H. (amp 2008)
    10. A quantitative atlas of mitotic phosphorylation. (PubMed id 18669648)2 Dephoure N.... Gygi S.P. (Proc. Natl. Acad. Sci. U.S.A. 2008)

    (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: 84256 HGNC: 25404 AceView: DKFZp761A132 Ensembl:ENSG00000059122 euGenes: HUgn84256
    ECgene: FLYWCH1 H-InvDB: FLYWCH1

    (According to HUGE)
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    HUGE: KIAA1552

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for FLYWCH1 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 FLYWCH1 gene:
    Search GeneIP for patents involving FLYWCH1

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



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