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

Gene ID: 54865, updated on 6-Sep-2022

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. [provided by Alliance of Genome Resources, Apr 2022]
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
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Genomic context

See GPATCH4 in Genome Data Viewer
Location:
1q22-q23.1
Exon count:
8
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (156594301..156601479, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (155730677..155737859, complement)
105.20220307 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 tetratricopeptide repeat domain 24 Neighboring gene NAD(P)HX epimerase Neighboring gene hyaluronan and proteoglycan link protein 2 Neighboring gene uncharacterized LOC101928177 Neighboring gene brevican

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?

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

Homology

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 
Process Evidence Code Pubs
involved_in regulation of ribosome biogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
is_active_in nucleolus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
G patch domain-containing protein 4

NCBI Reference Sequences (RefSeq)

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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
    Q9NXH4
    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
    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
    Consensus CDS
    CCDS44245.1
    UniProtKB/TrEMBL
    A8KAG1, E9PAV9
    Related
    ENSP00000396441.3, ENST00000438976.7
    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
    Consensus CDS
    CCDS1146.1
    UniProtKB/TrEMBL
    A0A0A0MRK1, A8KAG1
    Related
    ENSP00000357215.5, ENST00000368232.9
    Conserved Domains (1) summary
    pfam01585
    Location:855
    G-patch; G-patch domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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.