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    SNX4 sorting nexin 4 [ Homo sapiens (human) ]

    Gene ID: 8723, updated on 4-Jan-2025

    Summary

    Official Symbol
    SNX4provided by HGNC
    Official Full Name
    sorting nexin 4provided by HGNC
    Primary source
    HGNC:HGNC:11175
    See related
    Ensembl:ENSG00000114520 MIM:605931; AllianceGenome:HGNC:11175
    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
    ATG24B
    Summary
    This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. This protein associated with the long isoform of the leptin receptor and with receptor tyrosine kinases for platelet-derived growth factor, insulin, and epidermal growth factor in cell cultures, but its function is unknown. This protein may form oligomeric complexes with family members. Two transcript variants, one protein coding and the other non-protein coding, have been found for this gene. [provided by RefSeq, Nov 2012]
    Expression
    Ubiquitous expression in thyroid (RPKM 29.2), kidney (RPKM 26.4) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See SNX4 in Genome Data Viewer
    Location:
    3q21.2
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (125446650..125520202, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (128173305..128246821, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (125165494..125239046, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105374081 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20430 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:125238317-125238818 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20431 Neighboring gene oxysterol binding protein like 11 Neighboring gene HNF1 motif-containing MPRA enhancer 180 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20432 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20433 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20434 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:125390028-125390702 Neighboring gene YTHDF3 pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Interactions

    General gene information

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    part_of SNARE complex  
    part_of SNARE complex PubMed 
    located_in cytoplasm PubMed 
    part_of cytoplasmic dynein complex PubMed 
    is_active_in early endosome PubMed 
    is_active_in early endosome membrane  
    is_active_in early endosome membrane PubMed 
    located_in early endosome membrane PubMed 
    located_in membrane PubMed 
    is_active_in plasma membrane  
    located_in plasma membrane PubMed 
    located_in presynaptic endosome  
    part_of protein-containing complex PubMed 

    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_003794.4 → NP_003785.1  sorting nexin-4

      See identical proteins and their annotated locations for NP_003785.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and is the protein-coding variant.
      Source sequence(s)
      AI187416, AK001835, DA289870
      Consensus CDS
      CCDS3032.1
      UniProtKB/Swiss-Prot
      B3KMH0, B4DQV4, D3DNA3, O95219
      Related
      ENSP00000251775.4, ENST00000251775.9
      Conserved Domains (2) summary
      cd06864
      Location:58 → 184
      PX_SNX4; The phosphoinositide binding Phox Homology domain of Sorting Nexin 4
      cd07622
      Location:205 → 448
      BAR_SNX4; The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 4

    RNA

    1. NR_073435.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks an alternate internal exon compared to variant 1. This variant is represented as non-coding due to the presence of an upstream ORF that is predicted to interfere with translation of the longest ORF; translation of the upstream ORF renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AI187416, AK001835, AK298972, DA289870

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      125446650..125520202 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017007414.3 → XP_016862903.1  sorting nexin-4 isoform X1

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      128173305..128246821 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054348266.1 → XP_054204241.1  sorting nexin-4 isoform X1

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