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    SERINC3 serine incorporator 3 [ Homo sapiens (human) ]

    Gene ID: 10955, updated on 27-Nov-2024

    Summary

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    Official Symbol
    SERINC3provided by HGNC
    Official Full Name
    serine incorporator 3provided by HGNC
    Primary source
    HGNC:HGNC:11699
    See related
    Ensembl:ENSG00000132824 MIM:607165; AllianceGenome:HGNC:11699
    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
    TDE; TDE1; AIGP1; TMS-1; DIFF33; SBBI99
    Summary
    Predicted to enable L-serine transmembrane transporter activity. Involved in defense response to virus; detection of virus; and innate immune response. Predicted to be located in plasma membrane. Predicted to be active in membrane. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in brain (RPKM 33.6), testis (RPKM 32.1) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SERINC3 in Genome Data Viewer
    Location:
    20q13.12
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (44496221..44522070, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (46231988..46257836, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (43124862..43150711, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17924 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12941 Neighboring gene ribosomal protein L37a pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17925 Neighboring gene alpha tocopherol transfer protein like Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr20:43124829-43126028 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:43149922-43150474 Neighboring gene Sharpr-MPRA regulatory region 7879 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr20:43152936-43153812 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:43154689-43155564 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:43160105-43160605 Neighboring gene cAMP-dependent protein kinase inhibitor gamma Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17927 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17928 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17929 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:43226219-43226966 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:43229479-43229980 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:43237694-43238268 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17930 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17931 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17933 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr20:43246415-43247142 Neighboring gene adenosine deaminase intronic regulatory elements Neighboring gene adenosine deaminase Neighboring gene proximal ADA Alu-mediated recombination region

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. HIV-cell membrane fusion intermediates are restricted by Serincs as revealed by cryo-electron and TIRF microscopy. Ward AE, et al. J Biol Chem, 2020 Nov 6. PMID 32788212, Free PMC Article
    2. The human TDE gene homologue: localization to 20q13.1-13.3 and variable expression in human tumor cell lines and tissue. Bossolasco M, et al. Mol Carcinog, 1999 Nov. PMID 10559794
    3. Human TDE1, a TDE1/TMS family member, inhibits apoptosis in vitro and stimulates in vivo tumorigenesis. Bossolasco M, et al. Oncogene, 2006 Aug 3. PMID 16547497
    4. Potent Enhancement of HIV-1 Replication by Nef in the Absence of SERINC3 and SERINC5. Wu Y, et al. mBio, 2019 Jun 11. PMID 31186327, Free PMC Article
    5. SERINC3 and SERINC5 restrict HIV-1 infectivity and are counteracted by Nef. Usami Y, et al. Nature, 2015 Oct 8. PMID 26416733, Free PMC Article

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. HIV-cell membrane fusion intermediates are restricted by Serincs as revealed by cryo-electron and TIRF microscopy.
      Title: HIV-cell membrane fusion intermediates are restricted by Serincs as revealed by cryo-electron and TIRF microscopy.
    2. In MOLT-3 cells, Nef remained crucial for HIV-1 replication even in the absence of SERINC3 and SERINC5.
      Title: Potent Enhancement of HIV-1 Replication by Nef in the Absence of SERINC3 and SERINC5.
    3. SERINC3 and SERINC5 together restricted HIV-1 replication, and this restriction was evaded by Nef
      Title: SERINC3 and SERINC5 restrict HIV-1 infectivity and are counteracted by Nef.
    4. TDE1 inhibits apoptosis and stimulates tumorigenesis
      Title: Human TDE1, a TDE1/TMS family member, inhibits apoptosis in vitro and stimulates in vivo tumorigenesis.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    A genome-wide association study of seasonal pattern mania identifies NF1A as a possible susceptibility gene for bipolar disorder.
    EBI GWAS Catalog
    Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SERINC3 PubMed
    HIV-1 Nef deleted virus replication is restricted by SERINC3 and SERINC5 (combined effect of SERINC3 and SERINC5 noted) PubMed
    HIV-1 Nef deleted virus is restricted by SERINC3; CRISPR-Cas9 knockout of SERINC3 in cells producing HIV-1 Nef deleted virus enhances infectivity HIV-1 Nef deleted virus of subsequent target cells PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Nef nef HIV-1 Nef counteracts restriction of HIV-1 replication by SERINC3 and SERINC5 PubMed
    nef HIV-1 Nef downregulates SERINC3 expression on the cell surfacem, which in turn, prevents incorporation into virions to an extent that correlates with infectivity enhancement PubMed
    nef HIV-1 Nef downregulates cell (CEMT4) surface expression of SERINC3 PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables L-serine transmembrane transporter activity TAS
    Traceable Author Statement
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in L-serine biosynthetic process TAS
    Traceable Author Statement
    more info
    		  
    involved_in L-serine transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in defense response to virus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in detection of virus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in innate immune response IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
    		  

    General protein information

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    Preferred Names
    serine incorporator 3
    Names
    tumor differentially expressed protein 1

    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_006811.4 → NP_006802.1  serine incorporator 3

      See identical proteins and their annotated locations for NP_006802.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      AA294859, AA772607, AF112227, BI599912, CA950523, CB956722, CN369494, DA978982, Z97053
      Consensus CDS
      CCDS13333.1
      UniProtKB/Swiss-Prot
      B4DUE9, O43717, Q13530, Q9BR33
      UniProtKB/TrEMBL
      Q53GK8
      Related
      ENSP00000340243.4, ENST00000342374.5
      Conserved Domains (1) summary
      pfam03348
      Location:16 → 471
      Serinc; Serine incorporator (Serinc)

    2. NM_198941.3 → NP_945179.1  serine incorporator 3

      See identical proteins and their annotated locations for NP_945179.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 3' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      AA294859, AF112227, BF061792, BU739133, CB956722
      Consensus CDS
      CCDS13333.1
      UniProtKB/Swiss-Prot
      B4DUE9, O43717, Q13530, Q9BR33
      UniProtKB/TrEMBL
      Q53GK8
      Related
      ENSP00000255175.1, ENST00000255175.5
      Conserved Domains (1) summary
      pfam03348
      Location:16 → 471
      Serinc; Serine incorporator (Serinc)

    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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      44496221..44522070 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      46231988..46257836 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q13530.2 GenPept UniProtKB/Swiss-Prot:Q13530

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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