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SLC5A6 solute carrier family 5 member 6 [ Homo sapiens (human) ]

Gene ID: 8884, updated on 21-Apr-2019

Summary

Official Symbol
SLC5A6provided by HGNC
Official Full Name
solute carrier family 5 member 6provided by HGNC
Primary source
HGNC:HGNC:11041
See related
Ensembl:ENSG00000138074 MIM:604024
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
SMVT
Expression
Broad expression in placenta (RPKM 17.5), testis (RPKM 16.1) and 24 other tissues See more
Orthologs

Genomic context

See SLC5A6 in Genome Data Viewer
Location:
2p23.3
Exon count:
20
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 2 NC_000002.12 (27199587..27212342, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (27422455..27435175, complement)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene proline rich 30 Neighboring gene transcription factor 23 Neighboring gene all-trans retinoic acid induced differentiation factor Neighboring gene carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase Neighboring gene solute carrier family 30 member 3 Neighboring gene DnaJ heat shock protein family (Hsp40) member C5 gamma

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 FunctionsWhat's a GeneRIF?

HIV-1 interactions

Replication interactions

Interaction Pubs
HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SLC5A6 PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Biotin transport and metabolism, organism-specific biosystem (from REACTOME)
    Biotin transport and metabolism, organism-specific biosystemBiotin (Btn) is an essential cofactor in a variety of carboxylation reactions (Zempleni et al. 2009). Humans cannot synthesize Btn but it is abundant in the human diet and can be taken up from the in...
  • Metabolism, organism-specific biosystem (from REACTOME)
    Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
  • Metabolism of vitamins and cofactors, organism-specific biosystem (from REACTOME)
    Metabolism of vitamins and cofactors, organism-specific biosystemVitamins are a diverse group of organic compounds, classified according to their solubility, either fat-soluble or water-soluble, that are either not synthesized or synthesized only in limited amount...
  • Metabolism of water-soluble vitamins and cofactors, organism-specific biosystem (from REACTOME)
    Metabolism of water-soluble vitamins and cofactors, organism-specific biosystemVitamins are a diverse group of organic compounds, required in small amounts in the diet. They have distinct biochemical roles, often as coenzymes, and are either not synthesized or synthesized only ...
  • NRF2 pathway, organism-specific biosystem (from WikiPathways)
    NRF2 pathway, organism-specific biosystemNRF2 is part of a group of transcription factors called nuclear receptors. It is activated under oxidative stress conditions and subsequently activates several antioxidative genes and proteins.
  • SLC-mediated transmembrane transport, organism-specific biosystem (from REACTOME)
    SLC-mediated transmembrane transport, organism-specific biosystemProteins with transporting functions can be roughly classified into 3 categories: ATP-powered pumps, ion channels, and transporters. Pumps utilize the energy released by ATP hydrolysis to power the m...
  • Transmembrane transport of small molecules, organism-specific biosystem (from REACTOME)
    Transmembrane transport of small molecules, organism-specific biosystem
    Transmembrane transport of small molecules
  • Transport of vitamins, nucleosides, and related molecules, organism-specific biosystem (from REACTOME)
    Transport of vitamins, nucleosides, and related molecules, organism-specific biosystemThis pathway groups the processes mediated by SLC transporters, by which vitamins and cofactors, as well as nucleosides, nucleotides, nucleobases, and related molecules cross lipid bilayer membranes.
  • Vitamin B5 (pantothenate) metabolism, organism-specific biosystem (from REACTOME)
    Vitamin B5 (pantothenate) metabolism, organism-specific biosystemPanthothenate (vitamin B5) is the precursor of coenzyme A (Robishaw and Neely 1985) and is the prosthetic group of acyl carrier protein (ACP) (Joshi et al. 2003). Its name is derived from the Greek p...
  • Vitamin digestion and absorption, organism-specific biosystem (from KEGG)
    Vitamin digestion and absorption, organism-specific biosystemVitamins are a diverse and chemically unrelated group of organic substances that share a common feature of being essential for normal health and well-being. They catalyze numerous biochemical reactio...
  • Vitamin digestion and absorption, conserved biosystem (from KEGG)
    Vitamin digestion and absorption, conserved biosystemVitamins are a diverse and chemically unrelated group of organic substances that share a common feature of being essential for normal health and well-being. They catalyze numerous biochemical reactio...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Process Evidence Code Pubs
biotin metabolic process TAS
Traceable Author Statement
more info
 
pantothenate metabolic process TAS
Traceable Author Statement
more info
 
sodium ion transport IEA
Inferred from Electronic Annotation
more info
 
transmembrane transport TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
brush border membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of plasma membrane TAS
Traceable Author Statement
more info
PubMed 
membrane TAS
Traceable Author Statement
more info
PubMed 
plasma membrane TAS
Traceable Author Statement
more info
 
vesicle membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
sodium-dependent multivitamin transporter
Names
Na(+)-dependent multivitamin transporter
Na+-dependent multivitamin transporter
solute carrier family 5 (sodium-dependent vitamin transporter), member 6
solute carrier family 5 (sodium/multivitamin and iodide cotransporter), member 6

NCBI Reference Sequences (RefSeq)

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_021095.3NP_066918.2  sodium-dependent multivitamin transporter

    See identical proteins and their annotated locations for NP_066918.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the functional protein.
    Source sequence(s)
    AF069307, AF288781, BC012806, DB452476, N30242
    Consensus CDS
    CCDS1740.1
    UniProtKB/Swiss-Prot
    Q9Y289
    UniProtKB/TrEMBL
    Q9HD19
    Related
    ENSP00000310208.3, ENST00000310574.8
    Conserved Domains (1) summary
    cd11504
    Location:24550
    SLC5sbd_SMVT; Na(+)/multivitamin cotransporter SMVT and related proteins; solute-binding domain

RNA

  1. NR_028323.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has two differences in the presence and absence of alternate segments, compared to variant 1. This variant is represented as non-coding because the use of the 5' most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK027855, BG025980, BI832199, BQ651664, DA958474, DB452476, N30242
    Related
    ENST00000488743.6

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p12 Primary Assembly

    Range
    27199587..27212342 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024453207.1XP_024308975.1  sodium-dependent multivitamin transporter isoform X3

    Conserved Domains (1) summary
    cl00456
    Location:24515
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain
  2. XM_024453206.1XP_024308974.1  sodium-dependent multivitamin transporter isoform X2

    Conserved Domains (1) summary
    cl00456
    Location:24517
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain
  3. XM_011533146.3XP_011531448.1  sodium-dependent multivitamin transporter isoform X5

    Conserved Domains (1) summary
    cl00456
    Location:23327
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain
  4. XM_006712129.1XP_006712192.1  sodium-dependent multivitamin transporter isoform X1

    See identical proteins and their annotated locations for XP_006712192.1

    UniProtKB/Swiss-Prot
    Q9Y289
    Conserved Domains (1) summary
    cd11504
    Location:24550
    SLC5sbd_SMVT; Na(+)/multivitamin cotransporter SMVT and related proteins; solute-binding domain
  5. XM_006712130.1XP_006712193.1  sodium-dependent multivitamin transporter isoform X1

    See identical proteins and their annotated locations for XP_006712193.1

    UniProtKB/Swiss-Prot
    Q9Y289
    Conserved Domains (1) summary
    cd11504
    Location:24550
    SLC5sbd_SMVT; Na(+)/multivitamin cotransporter SMVT and related proteins; solute-binding domain
  6. XM_006712128.2XP_006712191.1  sodium-dependent multivitamin transporter isoform X1

    See identical proteins and their annotated locations for XP_006712191.1

    UniProtKB/Swiss-Prot
    Q9Y289
    Related
    ENSP00000384853.1, ENST00000408041.5
    Conserved Domains (1) summary
    cd11504
    Location:24550
    SLC5sbd_SMVT; Na(+)/multivitamin cotransporter SMVT and related proteins; solute-binding domain
  7. XM_017005216.1XP_016860705.1  sodium-dependent multivitamin transporter isoform X4

RNA

  1. XR_002959356.1 RNA Sequence

  2. XR_002959357.1 RNA Sequence

  3. XR_002959358.1 RNA Sequence

  4. XR_001739022.1 RNA Sequence

  5. XR_001739025.2 RNA Sequence

  6. XR_001739024.2 RNA Sequence

  7. XR_001739023.1 RNA Sequence

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