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

U2AF1L4 Gene

protein-coding   GIFtS: 46
GCID: GC19M036233

U2 small nuclear RNA auxiliary factor 1-like 4

(Previous names: U2(RNU2) small nuclear RNA auxiliary factor 1-like 3, U2...)
(Previous symbol: U2AF1L3)
 Explore 1 disease affiliated with
U2AF1L4 via our new
 Human Malady Compendium 
Biological research products
for U2AF1L4
    

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

Aliases
U2 Small Nuclear RNA Auxiliary Factor 1-Like 41 2     U2 Small Nuclear RNA Auxiliary Factor 1-Like Protein 42 3
U2AF1L31 2 3     U2(RNU2) Small Nuclear RNA Auxiliary Factor 1-Like Protein 32 3
U2af261 2     U2AF1-Like Protein 32 3
U2 Small Nuclear RNA Auxiliary Factor 1-Like 31 2     U2AF1RS32 5
U2(RNU2) Small Nuclear RNA Auxiliary Factor 1-Like 31 2     MGC339011
U2AF1-RS32 3     U2AF1L3V12
U2 Auxiliary Factor 262 3     Splicing Factor U2AF 26 KDa Subunit2
U2 Small Nuclear RNA Auxiliary Factor 1-Like Protein 32 3     

External Ids:    HGNC: 230201   Entrez Gene: 1997462   Ensembl: ENSG000001612657   OMIM: 6010805   UniProtKB: Q8WU683   

Export aliases for U2AF1L4 gene to outside databases

Previous GC identifers: GC00U914419 GC19M040926 GC19M032738


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

UniProtKB/Swiss-Prot: U2AF4_HUMAN, Q8WU68
Function: RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive
and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for
accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates
in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an
event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site (By similarity)




(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_000019.9  NC_018930.1  NT_011109.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the U2AF1L4 gene promoter:
         NF-1/L   NF-1   p53   c-Ets-1   CREB   POU2F1   POU2F1a   deltaCREB   COMP1   ZIC2/Zic2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidU2AF1L4 promoter sequence
   Search SABiosciences Chromatin IP Primers for U2AF1L4

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat U2AF1L4


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

Entrez Gene cytogenetic band: 19q13.12   Ensembl cytogenetic band:  19q13.12   HGNC cytogenetic band: 19q13.13

U2AF1L4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
U2AF1L4 gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19M036233:  view genomic region     (about GC identifiers)

Start:
36,233,365 bp from pter      End:
36,236,346 bp from pter
Size:
2,982 bases      Orientation:
minus 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: U2AF4_HUMAN, Q8WU68 (See protein sequence)
Recommended Name: Splicing factor U2AF 26 kDa subunit  
Size: 220 amino acids; 25744 Da
Subunit: Interacts with GFI1 and U2AF2 (By similarity)
Subcellular location: Nucleus (By similarity). Nucleus speckle (By similarity)
Secondary accessions: A6NKI8 Q56UU3
Alternative splicing: 3 isoforms:  Q8WU68-1   Q8WU68-2   Q8WU68-3   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for U2AF1L4: NX_Q8WU68

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q8WU68

  • U2AF1L4 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001035515.1  NP_659424.2  

    ENSEMBL proteins: 
     ENSP00000465242   ENSP00000465170   ENSP00000368258   ENSP00000292879   ENSP00000467441  
     ENSP00000468469   ENSP00000397645  

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    Uscn Proteins for U2AF1L4

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005681spliceosomal complex IEA--
    GO:0016607nuclear speck IEA--


    U2AF1L4 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

    U2AF1L4 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR000571 Znf_CCCH
     IPR003954 RRM_dom_euk
     IPR000504 RRM_dom
     IPR012677 Nucleotide-bd_a/b_plait
     IPR009145 U2_small

    Graphical View of Domain Structure for InterPro Entry Q8WU68

    ProtoNet protein and cluster: Q8WU68

    2 Blocks protein families:
    IPB000504 RNA-binding region RNP-1 (RNA recognition motif)
    IPB000571 Zn-finger


    UniProtKB/Swiss-Prot: U2AF4_HUMAN, Q8WU68
    Domain: The second zinc finger in necessary for interaction with GFI1 and for alternative pre-mRNA splicing events (By
    similarity)
    Similarity: Belongs to the splicing factor SR family
    Similarity: Contains 2 C3H1-type zinc fingers
    Similarity: Contains 1 RRM (RNA recognition motif) 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: U2AF4_HUMAN, Q8WU68
    Function: RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive
    and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for
    accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates
    in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an
    event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site (By similarity)

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    Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000166nucleotide binding IEA--
    GO:0003723RNA binding IEA--
    GO:0005515protein binding ----
    GO:0008270zinc ion binding IEA--


    U2AF1L4 for ontologies           About GeneDecksing


    1 GenomeRNAi human phenotype for U2AF1L4:
     Increased cell number in G1, s 


    (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:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for U2AF1L4

    STRING Interaction Network Preview (showing 3 interactants - click image to see more details)

    3 Interacting proteins for U2AF1L4 (Q8WU683 ENSP000002928794) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GIGYF2Q6Y7W63, ENSP000003871704I2D: score=1 STRING: ENSP00000387170
    GFI1ENSP000002947024STRING: ENSP00000294702
    ELAVL1ENSP000003852694STRING: ENSP00000385269
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006397mRNA processing IEA--
    GO:0008380RNA splicing IEA--


    U2AF1L4 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
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    Browse Tocris compounds for U2AF1L4
    Search CenterWatch for drugs/clinical trials and news about U2AF1L4 / U2AF4 

    (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,
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    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 U2AF1L4 gene (2 alternative transcripts): 
    NM_001040425.1  NM_144987.2  

    Unigene Cluster for U2AF1L4:

    U2 small nuclear RNA auxiliary factor 1-like 4
    Hs.351558  [show with all ESTs]
    Unigene Representative Sequence: BC049208
    18 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000591057 ENST00000591084 ENST00000590135 ENST00000585554 ENST00000591855
    ENST00000587987 ENST00000589429 ENST00000588980 ENST00000378975(uc002obe.3)
    ENST00000592913 ENST00000292879(uc002obf.3) ENST00000588892 ENST00000586476
    ENST00000585771 ENST00000587886 ENST00000588100 ENST00000590650 ENST00000412391(uc002obg.3 uc002obh.1)


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    Additional cDNA sequence: 

    AK092844.1 AK303983.1 AY461582.1 AY569437.3 BC010865.1 BC021186.1 BC049208.1 BC062474.1 

    24 DOTS entries:

    DT.101984198  DT.100789061  DT.101984199  DT.213497  DT.213499  DT.121488876  DT.121488788  DT.100700046 
    DT.100789057  DT.99936823  DT.100699338  DT.95161758  DT.91660602  DT.100789056  DT.121488888  DT.121488838 
    DT.121488905  DT.422019  DT.100037322  DT.100789054  DT.100789055  DT.100789060  DT.121488843  DT.95188629 

    24/175 AceView cDNA sequences (see all 175):

    BI838452 BM695629 BU608847 CD742777 AI921582 BC031329 AX775837 BX337984 
    BF445882 CD742768 NM_024660 BE549868 BU628789 CD367682 AI719948 CA748721 
    BC062474 AW978267 BU542243 AI970395 AK026226 BC049208 BE910002 AI925610 

    GeneLoc Exon Structure

    5/15 Alternative Splicing Database (ASD) splice patterns (SP) for U2AF1L4 (see all 15)    About this scheme

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

    ExUns: 11c · 11d · 11e
    SP1:                  
    SP2:                  
    SP3:                  
    SP4:                  
    SP5:                  


    ECgene alternative splicing isoforms for U2AF1L4

    (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

    U2AF1L4 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: GAGACCTTCT

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

    About this image
    See U2AF1L4 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for U2AF1L4

    SOURCE GeneReport for Unigene cluster: Hs.351558

    UniProtKB/Swiss-Prot: U2AF4_HUMAN, Q8WU68
    Tissue specificity: Isoform 2 is widely expressed. Isoform 3 is highly expressed in heart, brain and lung, lower
    expressed in thymus and much lower expressed in peripheral blood leukocytes

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    In Situ
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for U2AF1L4

    (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 U2AF1L4 gene from 5/23 species (see all 23)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    fruit fly
    (Drosophila melanogaster)
    Insecta U2af386
    U2 small nuclear riboprotein auxiliary factor 38
    34(a)
    1 → many
    2L(292959-294681)
    worm
    (Caenorhabditis elegans)
    Secernentea uaf-26
    U2AF splicing factor family member (uaf-2)
    28(a)
    1 → many
    IV(17116726-17118724)
    A. gossypii yeast
    (Ashbya gossypii)
    Saccharomycetes AGOS_ADL355W1 ADL355Wp 52.46(n)
    40.16(a)
      4619875  NM_209093.1  NP_983740.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT3G447856
    U2AF35B6
    (see all 3)
    Splicing factor U2af small subunit B
    (see all 3)
    47(a)
    26(a)
    (see all 3)
    possible ortholog
    possible ortholog
    (see all 3)
    3(16328221-16328448)
    5(17169283-17171704)
    rice
    (Oryza sativa)
    Liliopsida Os.120752 Oryza sativa hypothetical protein mRNA, partial cds 76.81(n)    NM_191929.1 


    ENSEMBL Gene Tree for U2AF1L4 (if available)
    TreeFam Gene Tree for U2AF1L4 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for U2AF1L4 gene
    ZRSR22  U2AF12  ZRSR12  
    3 SIMAP similar genes for U2AF1L4 using alignment to 6 protein entries:     U2AF4_HUMAN (see all proteins):
    DKFZp313J1712    U2AF1    ZRSR2

    U2AF1L4 for paralogs           About GeneDecksing


    2 Pseudogenes.org Pseudogenes for U2AF1L4
    PGOHUM00000250411 PGOHUM00000251204


    (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
    SABiosciences Cancer Mutation 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.)
    About This Section

    U2AF1L4 for disorders           About GeneDecksing

    OMIM gene information: 601080    OMIM disorders: --

    1 disease for U2AF1L4:    About MalaCards
    malaria


    Export disorders for U2AF1L4 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 U2AF1L4 gene, integrated from 9 sources (see all 15):
    (articles sorted by number of sources associating them with U2AF1L4)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Characterization of U2AF(6), a splicing factor related to U2AF(35). (PubMed id 11739736)1, 3 Shepard J....Graveley B.R. (2002)
    2. Isolation and mapping of human homologues of an imprinted mouse gene U2af1-rs1. (PubMed id 8586425)1, 3 Kitagawa K.... Mukai T. (1995)
    3. 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)
    4. Functional dissection of an enhancer-like element loc ated within the second intron of the human U2AF1L4 gene. (PubMed id 22022969)1 Didych D.A....Sverdlov E.D. (2011)
    5. Conserved beta-hairpin recognition by the GYF domains of Smy2 and GIGYF2 in mRNA surveillance and vesicular transport complexes. (PubMed id 20696395)1 Ash M.R....Freund C. (2010)
    6. Ubiquitin-mediated proteolysis of HuR by heat shock. (PubMed id 19322201)1 Abdelmohsen K....Gorospe M. (2009)
    7. Differential isoform expression and interaction with the P32 regulatory protein controls the subcellular localization of the splicing factor U2AF26. (PubMed id 18460468)1 Heyd F....Moroy T. (2008)
    8. Cloning and characterization of a novel splice variant of human U2AF1L3 gene. (PubMed id 17312947)2 Chen F.... Mao Y. (2006)
    9. Cloning and characterization of a novel splice variant of human Rab18 gene (RAB18). (PubMed id 16147880)1 Dou T.... Mao Y. (2005)
    10. 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. (2004)

    (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)
    About This Section
    Entrez Gene: 199746 HGNC: 23020 AceView: FLJ22573andU2AF1L3 Ensembl:ENSG00000161265 euGenes: HUgn199746
    ECgene: U2AF1L4 H-InvDB: U2AF1L4

    (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 U2AF1L4 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 U2AF1L4 gene:
    Search GeneIP for patents involving U2AF1L4

    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: 19 Mar 2013 - Incrementals: 21 Mar 2013 , 15 Apr 2013 , 26 Apr 2013

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