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CPSF4L Gene

protein-coding   GIFtS: 39
GCID: GC17M071244

Cleavage And Polyadenylation Specific Factor 4-Like

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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
Cleavage And Polyadenylation Specific Factor 4-Like1 2
Putative Cleavage And Polyadenylation Specificity Factor Subunit 4-Like
Protein2

External Ids:    HGNC: 336321   Entrez Gene: 6428432   Ensembl: ENSG000001879597   UniProtKB: A6NMK73   

Export aliases for CPSF4L gene to outside databases

Previous GC identifers: GC17M068757 GC17M066653


(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 CPSF4L Gene:
CPSF4L (cleavage and polyadenylation specific factor 4-like) is a protein-coding gene. GO annotations related to this gene include RNA binding. An important paralog of this gene is CPSF4.


(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_000017.10  NC_018928.2  NT_010783.16  
Regulatory elements:
   Regulatory transcription factor binding sites in the CPSF4L gene promoter:
         Tal-1   MAZR   Lmo2   Nkx2-5   E47   YY1   MZF-1   GATA-6   Zic3   RSRFC4   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for CPSF4L

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat CPSF4L


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

Entrez Gene cytogenetic band: 17q25.1   Ensembl cytogenetic band:  17q25.1   HGNC cytogenetic band: 17q25.1

CPSF4L Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
CPSF4L gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M071244:  view genomic region     (about GC identifiers)

Start:
71,244,588 bp from pter      End:
71,258,491 bp from pter
Size:
13,904 bases      Orientation:
minus 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: CPS4L_HUMAN, A6NMK7 (See protein sequence)
Recommended Name: Putative cleavage and polyadenylation specificity factor subunit 4-like protein  
Size: 179 amino acids; 20727 Da
Sequence caution: Sequence=AC087301; Type=Erroneous gene model prediction;
Secondary accessions: A8MU95 B2RXI9

Explore the universe of human proteins at neXtProt for CPSF4L: NX_A6NMK7

Explore proteomics data for CPSF4L at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See CPSF4L Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001123357.1  
    ENSEMBL proteins: 
     ENSP00000343900   ENSP00000380788  

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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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    1 InterPro protein domain:
     IPR000571 Znf_CCCH

    Graphical View of Domain Structure for InterPro Entry A6NMK7

    ProtoNet protein and cluster: A6NMK7

    UniProtKB/Swiss-Prot: CPS4L_HUMAN, A6NMK7
    Similarity: Belongs to the CPSF4/YTH1 family
    Similarity: Contains 5 C3H1-type zinc fingers


    Find genes that share domains with CPSF4L           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:0003723RNA binding IEA--
    GO:0046872metal ion binding IEA--
         
    Find genes that share ontologies with CPSF4L           About GenesLikeMe


    Animal Models:
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    (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 COMPARTMENTS: 

    CompartmentConfidence
    cytosol2
    extracellular2
    nucleus1

    (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 CPSF4L
    Interactions:

        Search GeneGlobe Interaction Network for CPSF4L

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for CPSF4L (ENSP000003439004) via UniProtKB, MINT, STRING, and/or I2D (see all 33)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CPSF1ENSP000003393534STRING: ENSP00000339353
    CPSF2ENSP000002988754STRING: ENSP00000298875
    RBBP6ENSP000003178724STRING: ENSP00000317872
    SYMPKENSP000002459344STRING: ENSP00000245934
    WDR82ENSP000002964904STRING: ENSP00000296490
    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 CPSF4L (CPS4L)



    (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 CPSF4L gene: 
    NM_001129885.1  

    Unigene Cluster for CPSF4L:

    Cleavage and polyadenylation specific factor 4-like
    Hs.534707  [show with all ESTs]
    Unigene Representative Sequence: BC157870
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000344935(uc010dfk.1) ENST00000397671
    miRNA
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      QuantiFast Probe-based Assays in human, mouse, rat CPSF4L

    Additional mRNA sequence: BC157870.1 

    1 DOTS entry:

    DT.120946245 

    GeneLoc Exon Structure


    (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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    CPSF4L expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TCCCCAGAAT
    CPSF4L Expression
    About this image


    CPSF4L expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Ovary (Reproductive System)    fully expand to see all 3 entries
             Pre-Granulosa Cells Primordial Follicle
             Secondary follicles
    CPSF4L Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    CPSF4L Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.534707
        Custom PCR Arrays for CPSF4L
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for CPSF4L

    (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 animals and fungi.

    Orthologs for CPSF4L gene from Selected species (see all 11)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Cpsf4l1 , 5 cleavage and polyadenylation specific factor 4-like1, 5 81.33(n)1
    75.9(a)1
      11 (79.17 cM)5
    526701  NM_026682.21  NP_080958.21 
     1136981725 
    chicken
    (Gallus gallus)
    Aves CPSF4L6
    cleavage and polyadenylation specific factor 4-lik...
    29(a)
    1 ↔ 1
    18(9278534-9281520)
    fruit fly
    (Drosophila melanogaster)
    Insecta Clp6
    Clipper
    33(a)
    1 → many
    2L(819964-821209)
    worm
    (Caenorhabditis elegans)
    Secernentea cpsf-46
    Protein CPSF-4 (cpsf-4) mRNA, complete cds
    28(a)
    1 → many
    IV(12092320-12093472) WBGene00044329
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes YTH16
    Essential RNA-binding component of cleavage and po...
    31(a)
    1 → many
    XVI(741438-742064) YPR107C


    ENSEMBL Gene Tree for CPSF4L (if available)
    TreeFam Gene Tree for CPSF4L (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for CPSF4L gene
    CPSF42  ZC3H32  
    1 SIMAP similar gene for CPSF4L using alignment to 2 protein entries:     CPS4L_HUMAN (see all proteins):
    CPSF4

    Find genes that share paralogs with CPSF4L           About GenesLikeMe


    2 Pseudogenes.org Pseudogenes for CPSF4L
    PGOHUM00000246161 PGOHUM00000246162


    (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 CPSF4L (see all 305)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1911565351,2
    C--71245790(+) CCCCCA/CTTTCC 1 -- int10--------
    rs1450182711,2
    --71245911(+) CCATCG/TACTGC 1 -- int10--------
    rs1834392001,2
    --71246011(+) TTTGAA/GTTAAT 1 -- int10--------
    rs1475979081,2
    C--71246055(+) AGAGGA/GGCTGC 1 -- int10--------
    rs1407663691,2
    --71246129(+) GACTCA/GAGCTT 1 -- int10--------
    rs1866498071,2
    --71246143(+) GTTTTA/GTGTAC 1 -- int10--------
    rs786539311,2
    F--71246146(+) TTATGT/CACATT 1 -- int12Minor allele frequency- C:0.07CSA WA 120
    rs1501459381,2
    --71246212(+) ATTTTG/TAGTAG 1 -- int10--------
    rs1385677901,2
    --71246221(+) AGCTCA/GTTCAC 1 -- int10--------
    rs1127908221,2
    C,F--71246230(+) ACTTAC/GAGGAT 1 -- int13Minor allele frequency- G:0.07NA WA 240

    HapMap Linkage Disequilibrium report for CPSF4L (71244588 - 71258491 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for CPSF4L:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv2138CNV Insertion18451855
    nsv908735CNV Loss21882294
    nsv833534CNV 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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    Find genes that share disorders with CPSF4L           About GenesLikeMe

    Genetic Association Database (GAD): CPSF4L
    Human Genome Epidemiology (HuGE) Navigator: CPSF4L (1 document)

    Export disorders for CPSF4L 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 CPSF4L gene integrated from 10 sources:
    (articles sorted by number of sources associating them with CPSF4L)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1, 4 Rose J.E....Uhl G.R. (Mol. Med. 2010)
    2. DNA sequence of human chromosome 17 and analysis of rearrangement in the human lineage. (PubMed id 16625196)1, 2 Zody M.C.... Nusbaum C. (Nature 2006)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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, Kegg, and/or H-InvDB)
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    Entrez Gene: 642843 HGNC: 33632 Ensembl:ENSG00000187959 euGenes: HUgn642843 ECgene: CPSF4L
    H-InvDB: CPSF4L

    (According to HUGE)
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      --

    (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 CPSF4L 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 CPSF4L gene:
    Search GeneIP for patents involving CPSF4L

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



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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