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    YEATS4 YEATS domain containing 4 [ Homo sapiens (human) ]

    Gene ID: 8089, updated on 9-Dec-2024

    Summary

    Official Symbol
    YEATS4provided by HGNC
    Official Full Name
    YEATS domain containing 4provided by HGNC
    Primary source
    HGNC:HGNC:24859
    See related
    Ensembl:ENSG00000127337 MIM:602116; AllianceGenome:HGNC:24859
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    YAF9; GAS41; NUBI-1; 4930573H17Rik; B230215M10Rik
    Summary
    The protein encoded by this gene is found in the nucleoli. It has high sequence homology to human MLLT1, and yeast and human MLLT3 proteins. Both MLLT1 and MLLT3 proteins belong to a class of transcription factors, indicating that the encoded protein might also represent a transcription factor. This protein is thought to be required for RNA transcription. This gene has been shown to be amplified in tumors. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2014]
    Expression
    Broad expression in testis (RPKM 7.3), bone marrow (RPKM 4.6) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See YEATS4 in Genome Data Viewer
    Location:
    12q15
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (69359743..69427072)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (69338679..69406033)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (69753523..69784650)

    Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene C1GALT1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6649 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:69725950-69726664 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:69753267-69753870 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:69753871-69754472 Neighboring gene lysozyme Neighboring gene RNA, 7SL, cytoplasmic 804, pseudogene Neighboring gene Sharpr-MPRA regulatory regions 8384 and 8454 Neighboring gene ribosomal protein S26 pseudogene 45 Neighboring gene long intergenic non-protein coding RNA 2373 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr12:69860555-69861168 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:69863839-69864340 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6651 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6652 Neighboring gene fibroblast growth factor receptor substrate 2 Neighboring gene small nucleolar RNA, H/ACA box 113

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    A genome-wide search for common SNP x SNP interactions on the risk of venous thrombosis.
    EBI GWAS Catalog
    Genomic association analysis suggests chromosome 12 locus influencing antihypertensive response to thiazide diuretic.
    EBI GWAS Catalog
    Many sequence variants affecting diversity of adult human height.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables histone binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables lysine-acetylated histone binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables modification-dependent protein binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables structural constituent of cytoskeleton NAS
    Non-traceable Author Statement
    more info
    PubMed 
    Component Evidence Code Pubs
    part_of NuA4 histone acetyltransferase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of NuA4 histone acetyltransferase complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nuclear matrix NAS
    Non-traceable Author Statement
    more info
    PubMed 
    located_in nuclear membrane IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    part_of nucleosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of nucleosome NAS
    Non-traceable Author Statement
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    YEATS domain-containing protein 4
    Names
    NuMA binding protein 1
    glioma-amplified sequence 41
    nuBI1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    Genomic

    1. NG_052956.2 RefSeqGene

      Range
      5002..36129
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001300950.2NP_001287879.1  YEATS domain-containing protein 4 isoform 2

      See identical proteins and their annotated locations for NP_001287879.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks two in-frame exons in the 5' coding region compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      BC000994, CA775118, CK820576, DN915967, U61384
      Consensus CDS
      CCDS73495.1
      UniProtKB/TrEMBL
      F8W0J4
      Related
      ENSP00000447199.1, ENST00000548020.5
      Conserved Domains (1) summary
      cl38902
      Location:19101
      YEATS; YEATS domain family, chromatin reader proteins
    2. NM_006530.4NP_006521.1  YEATS domain-containing protein 4 isoform 1

      See identical proteins and their annotated locations for NP_006521.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC117502, CK820576, DN915967, U61384
      Consensus CDS
      CCDS8990.1
      UniProtKB/Swiss-Prot
      O95619, Q9NQD0
      Related
      ENSP00000247843.2, ENST00000247843.7
      Conserved Domains (1) summary
      cd16909
      Location:19155
      YEATS_GAS41_like; YEATS domain found in YEATS domain-containing protein 4 and similar proteins

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

      Range
      69359743..69427072
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_944742.4 RNA Sequence

    2. XR_007063126.1 RNA Sequence

    3. XR_007063128.1 RNA Sequence

    4. XR_007063129.1 RNA Sequence

    5. XR_001748876.2 RNA Sequence

    6. XR_007063130.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060936.1 Alternate T2T-CHM13v2.0

      Range
      69338679..69406033
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_008488683.1 RNA Sequence

    2. XR_008488681.1 RNA Sequence

    3. XR_008488685.1 RNA Sequence

    4. XR_008488684.1 RNA Sequence