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SERINC3 serine incorporator 3 [ Homo sapiens (human) ]

Gene ID: 10955, updated on 5-Mar-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 Golgi apparatus. Predicted to be active in membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in brain (RPKM 33.6), testis (RPKM 32.1) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
20q13.12
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (44496221..44522070, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (46231988..46257836, complement)
105.20220307 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. 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
  4. 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
  5. HIV-1 Nef promotes infection by excluding SERINC5 from virion incorporation. Rosa A, et al. Nature, 2015 Oct 8. PMID 26416734, 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)

Genotypes

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_2023_10

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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