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SLC13A4 solute carrier family 13 member 4 [ Homo sapiens (human) ]

Gene ID: 26266, updated on 27-Nov-2024

Summary

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Official Symbol
SLC13A4provided by HGNC
Official Full Name
solute carrier family 13 member 4provided by HGNC
Primary source
HGNC:HGNC:15827
See related
Ensembl:ENSG00000164707 MIM:604309; AllianceGenome:HGNC:15827
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
NAS2; SUT1; SUT-1
Summary
Enables sodium:sulfate symporter activity. Predicted to be involved in transmembrane transport. Predicted to be located in membrane. Predicted to be active in plasma membrane. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in placenta (RPKM 28.4) and testis (RPKM 3.0) See more
Orthologs
mouse all
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Genomic context

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See SLC13A4 in Genome Data Viewer
Location:
7q33
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (135681231..135728186, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (136988529..137035495, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (135365979..135412934, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18680 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:135347996-135348520 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:135348521-135349045 Neighboring gene Sharpr-MPRA regulatory region 4311 Neighboring gene ribosomal protein L15 pseudogene 11 Neighboring gene RNA, U6 small nuclear 1154, pseudogene Neighboring gene short transmembrane mitochondrial protein 1 Neighboring gene uncharacterized LOC105375521 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:135381445-135382158 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr7:135382159-135382872 Neighboring gene Sharpr-MPRA regulatory region 13285 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:135399353-135400219 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:135418827-135419327 Neighboring gene family with sequence similarity 180 member A Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:135429999-135431198 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:135437647-135438562 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:135438563-135439478 Neighboring gene uncharacterized LOC105375522

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. SLC13A4 Might Serve as a Prognostic Biomarker and be Correlated with Immune Infiltration into Head and Neck Squamous Cell Carcinoma. Yang ML, et al. Pathol Oncol Res, 2021. PMID 34840533, Free PMC Article
  2. Molecular analysis of sequence and splice variants of the human SLC13A4 sulfate transporter. Zhang Z, et al. Mol Genet Metab, 2017 May. PMID 28385533
  3. Molecular analysis of the human SLC13A4 sulfate transporter gene promoter. Jefferis J, et al. Biochem Biophys Res Commun, 2013 Mar 29. PMID 23485456
  4. Functional characterization and genomic organization of the human Na(+)-sulfate cotransporter hNaS2 gene (SLC13A4). Markovich D, et al. Biochem Biophys Res Commun, 2005 Jan 28. PMID 15607730
  5. Molecular cloning and functional analysis of SUT-1, a sulfate transporter from human high endothelial venules. Girard JP, et al. Proc Natl Acad Sci U S A, 1999 Oct 26. PMID 10535998, Free PMC Article

See all (15) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. SLC13A4 Might Serve as a Prognostic Biomarker and be Correlated with Immune Infiltration into Head and Neck Squamous Cell Carcinoma.
    Title: SLC13A4 Might Serve as a Prognostic Biomarker and be Correlated with Immune Infiltration into Head and Neck Squamous Cell Carcinoma.
  2. Study found that despite differential expression of the two SLC13A4 transcripts, no detectable functional difference in the cellular sorting or sulfate transporting was found. However, some variants can influence both mechanism in specific cell membranes. This is like to have clinical implications based on the consequences of impaired sulfate transport during pregnancy in rodent models.
    Title: Molecular analysis of sequence and splice variants of the human SLC13A4 sulfate transporter.
  3. SLC13A4 and SLC26A2 were the most abundant sulfate transporter mRNAs, which localized to syncytiotrophoblast and cytotrophoblast cells, respectively.
    Title: Human placental sulfate transporter mRNA profiling from term pregnancies identifies abundant SLC13A4 in syncytiotrophoblasts and SLC26A2 in cytotrophoblasts.
  4. To investigate the regulation of SLC13A4 gene expression, we analysed the transcriptional activity of the SLC13A4 5'-flanking region in the JEG-3 placental cell line using luciferase reporter assays.
    Title: Molecular analysis of the human SLC13A4 sulfate transporter gene promoter.
  5. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  6. Here, we characterized the functional properties of the human Na(+)-sulfate cotransporter (hNaS2), determined its tissue distribution, and identified its gene (SLC13A4) structure.
    Title: Functional characterization and genomic organization of the human Na(+)-sulfate cotransporter hNaS2 gene (SLC13A4).
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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Pathways from PubChem

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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 protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables sodium:sulfate symporter activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables sodium:sulfate symporter activity TAS
Traceable Author Statement
more info
  
enables transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in sodium ion transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in sulfate transmembrane transport TAS
Traceable Author Statement
more info
 PubMed 
involved_in transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in plasma membrane TAS
Traceable Author Statement
more info
  

General protein information

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Preferred Names
solute carrier family 13 member 4
Names
Na(+)/sulfate cotransporter SUT-1
solute carrier family 13 (sodium/sulfate symporter), member 4
solute carrier family 13 (sodium/sulfate symporters), member 4
solute carrier family 13 (sodium/sulphate symporters), member 4
sulphate transporter 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_001318192.2 → NP_001305121.1  solute carrier family 13 member 4 isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AB208809, AC091736, AF169301, BC030689
    Consensus CDS
    CCDS94210.1
    UniProtKB/TrEMBL
    A0A804HKQ4, A0AAQ5BH36, V9GYC7, V9GZ66
    Related
    ENSP00000508027.1, ENST00000682651.1
    Conserved Domains (2) summary
    cd01115
    Location:38 → 605
    SLC13_permease; Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is ...
    TIGR00785
    Location:40 → 604
    dass; anion transporter

  2. NM_012450.4 → NP_036582.2  solute carrier family 13 member 4 isoform 2

    See identical proteins and their annotated locations for NP_036582.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AB208809, AC091736, AF169301, BC030689
    Consensus CDS
    CCDS5840.1
    UniProtKB/Swiss-Prot
    A4D1Q4, Q8N631, Q9UKG4
    UniProtKB/TrEMBL
    A0AAQ5BH36
    Related
    ENSP00000297282.5, ENST00000354042.8
    Conserved Domains (1) summary
    cd01115
    Location:38 → 604
    SLC13_permease; Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is ...

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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    135681231..135728186 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047420184.1 → XP_047276140.1  solute carrier family 13 member 4 isoform X2

  2. XM_011516024.4 → XP_011514326.1  solute carrier family 13 member 4 isoform X1

    See identical proteins and their annotated locations for XP_011514326.1

    UniProtKB/TrEMBL
    A0AAQ5BH36
    Conserved Domains (1) summary
    cl21473
    Location:32 → 570
    ArsB_NhaD_permease; Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices ...

  3. XM_017011962.2 → XP_016867451.1  solute carrier family 13 member 4 isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    136988529..137035495 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054357863.1 → XP_054213838.1  solute carrier family 13 member 4 isoform X2

  2. XM_054357862.1 → XP_054213837.1  solute carrier family 13 member 4 isoform X1

  3. XM_054357864.1 → XP_054213839.1  solute carrier family 13 member 4 isoform X3

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9UKG4.2 GenPept UniProtKB/Swiss-Prot:Q9UKG4

Gene LinkOut

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

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