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    GPATCH4 G-patch domain containing 4 (gene/pseudogene) [ Homo sapiens (human) ]

    Gene ID: 54865, updated on 28-Oct-2024

    Summary

    Official Symbol
    GPATCH4provided by HGNC
    Official Full Name
    G-patch domain containing 4 (gene/pseudogene)provided by HGNC
    Primary source
    HGNC:HGNC:25982
    See related
    Ensembl:ENSG00000160818 AllianceGenome:HGNC:25982
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    GPATC4
    Summary
    Enables RNA binding activity. Predicted to act upstream of or within hematopoietic progenitor cell differentiation. Located in nucleolus and nucleoplasm. [provided by Alliance of Genome Resources, Oct 2024]
    Annotation information
    Annotation category: suggests misassembly
    Note: Genetic polymorphisms result in both protein coding and non-coding alleles of this gene.
    Expression
    Ubiquitous expression in appendix (RPKM 11.6), brain (RPKM 10.3) and 25 other tissues See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See GPATCH4 in Genome Data Viewer
    Location:
    1q22-q23.1
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (156594301..156601479, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (155730677..155737859, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (156564093..156571271, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1871 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1872 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1873 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156554411-156554912 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156554913-156555412 Neighboring gene tetratricopeptide repeat domain 24 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:156561722-156562568 Neighboring gene NAD(P)HX epimerase Neighboring gene hyaluronan and proteoglycan link protein 2 Neighboring gene uncharacterized LOC101928177 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1874 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156616142-156616665 Neighboring gene BCAN antisense RNA 2 Neighboring gene brevican Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156624901-156625401 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156626597-156627098 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156627099-156627599 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1432 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:156628979-156629479

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues 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?

    HIV-1 interactions

    Protein interactions

    Protein Gene Interaction Pubs
    Rev rev HIV-1 Rev is identified to have a physical interaction with G patch domain containing 4 (GPATCH4) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
     

    General protein information

    Preferred Names
    G patch domain-containing protein 4

    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.

    mRNA and Protein(s)

    1. NM_001396855.1NP_001383784.1  G patch domain-containing protein 4 isoform 3

      Status: VALIDATED

      Source sequence(s)
      AK293026, AL365181
      UniProtKB/Swiss-Prot
      Q5T3I0, Q5T3I1, Q6ZUE7, Q8IWG8, Q9NXH4
      UniProtKB/TrEMBL
      A8KAG1
      Conserved Domains (1) summary
      pfam01585
      Location:855
      G-patch; G-patch domain
    2. NM_001396861.1NP_001383790.1  G patch domain-containing protein 4 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AK293026, AL365181
      UniProtKB/TrEMBL
      A8KAG1
      Conserved Domains (1) summary
      pfam01585
      Location:1360
      G-patch; G-patch domain
    3. NM_015590.4NP_056405.2  G patch domain-containing protein 4 isoform 1

      See identical proteins and their annotated locations for NP_056405.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) lacks an internal segment in the 5' region, resulting in an upstream AUG start codon, as compared to variant 2. The resulting isoform (1) has a longer and distinct N-terminus, as compared to isoform 2.
      Source sequence(s)
      AK293026, AL365181, BC056904, BE326312, CB109133, DA087471
      UniProtKB/TrEMBL
      E9PAV9
      Conserved Domains (1) summary
      pfam01585
      Location:1360
      G-patch; G-patch domain
    4. NM_182679.3NP_872620.1  G patch domain-containing protein 4 isoform 2

      See identical proteins and their annotated locations for NP_872620.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) is the longer and predominant transcript, which encodes a shorter isoform (2).
      Source sequence(s)
      AK293026, AL365181, BC056904, BE326312, DA087471
      UniProtKB/TrEMBL
      A0A0A0MRK1
      Related
      ENSP00000357215.5, ENST00000368232.9
      Conserved Domains (1) summary
      pfam01585
      Location:855
      G-patch; G-patch domain

    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_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      156594301..156601479 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh38.p14 PATCHES

    Genomic

    1. NW_025791758.1 Reference GRCh38.p14 PATCHES

      Range
      152858..160038 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      155730677..155737859 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_017725.1: Suppressed sequence

      Description
      NM_017725.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.