U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    SLC28A3 solute carrier family 28 member 3 [ Homo sapiens (human) ]

    Gene ID: 64078, updated on 17-Jun-2024

    Summary

    Official Symbol
    SLC28A3provided by HGNC
    Official Full Name
    solute carrier family 28 member 3provided by HGNC
    Primary source
    HGNC:HGNC:16484
    See related
    Ensembl:ENSG00000197506 MIM:608269; AllianceGenome:HGNC:16484
    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
    CNT3
    Summary
    Nucleoside transporters, such as SLC28A3, regulate multiple cellular processes, including neurotransmission, vascular tone, adenosine concentration in the vicinity of cell surface receptors, and transport and metabolism of nucleoside drugs. SLC28A3 shows broad specificity for pyrimidine and purine nucleosides (Ritzel et al., 2001 [PubMed 11032837]).[supplied by OMIM, Mar 2008]
    Expression
    Biased expression in gall bladder (RPKM 4.2), bone marrow (RPKM 3.2) and 11 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See SLC28A3 in Genome Data Viewer
    Location:
    9q21.32-q21.33
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (84275457..84368727, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (96425798..96519059, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (86890372..86983642, complement)

    Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:86595393-86595900 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:86595901-86596409 Neighboring gene heterogeneous nuclear ribonucleoprotein K Neighboring gene uncharacterized LOC101927575 Neighboring gene RecQ mediated genome instability 1 Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 33 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr9:86766071-86767007 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:86787894-86788403 Neighboring gene Sharpr-MPRA regulatory region 11289 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19983 Neighboring gene NANOG hESC enhancer GRCh37_chr9:86891619-86892170 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr9:86892303-86893502 Neighboring gene SLC28A3 regulatory antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28503 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28504 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr9:86916903-86918102 Neighboring gene SLC28A3 intron nontranscribed chromatin-defined enhancer Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:86991346-86991846 Neighboring gene uncharacterized LOC102724036 Neighboring gene uncharacterized LOC124902192 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19984 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr9:87127109-87128308 Neighboring gene NANOG hESC enhancer GRCh37_chr9:87185076-87185832 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_108369 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28505 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19985 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28506 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28507 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28508 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr9:87323096-87324014 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28509 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28510 Neighboring gene neurotrophic receptor tyrosine kinase 2 Neighboring gene uncharacterized LOC124902193

    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 Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Gene-environment interactions and obesity traits among postmenopausal African-American and Hispanic women in the Women's Health Initiative SHARe Study.
    EBI GWAS Catalog
    Genome-wide association of lipid-lowering response to statins in combined study populations.
    EBI GWAS Catalog
    Genome-wide association study (GWAS) for molar-incisor hypomineralization (MIH).
    EBI GWAS Catalog
    Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
    EBI GWAS Catalog

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in brush border membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
     
    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

    Preferred Names
    solute carrier family 28 member 3
    Names
    concentrative Na(+)-nucleoside cotransporter 3
    concentrative Na+-nucleoside cotransporter
    solute carrier family 28 (concentrative nucleoside transporter), member 3
    solute carrier family 28 (sodium-coupled nucleoside transporter), member 3

    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_001199633.2NP_001186562.1  solute carrier family 28 member 3

      See identical proteins and their annotated locations for NP_001186562.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      AA643687, AF305210, AK022042, AK314039, AL356134
      Consensus CDS
      CCDS6670.1
      UniProtKB/Swiss-Prot
      A8K9Y4, B1AML0, B2RA51, B4E2S8, F5GYE3, Q9HAS3
      Related
      ENSP00000365413.4, ENST00000376238.5
      Conserved Domains (4) summary
      TIGR00804
      Location:201612
      nupC; nucleoside transporter
      pfam01773
      Location:206275
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07662
      Location:388612
      Nucleos_tra2_C; Na+ dependent nucleoside transporter C-terminus
      pfam07670
      Location:287383
      Gate; Nucleoside recognition
    2. NM_022127.3NP_071410.1  solute carrier family 28 member 3

      See identical proteins and their annotated locations for NP_071410.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same protein.
      Source sequence(s)
      AA643687, AF305210, AK022042, AL353787, AL356134
      Consensus CDS
      CCDS6670.1
      UniProtKB/Swiss-Prot
      A8K9Y4, B1AML0, B2RA51, B4E2S8, F5GYE3, Q9HAS3
      Conserved Domains (4) summary
      TIGR00804
      Location:201612
      nupC; nucleoside transporter
      pfam01773
      Location:206275
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07662
      Location:388612
      Nucleos_tra2_C; Na+ dependent nucleoside transporter C-terminus
      pfam07670
      Location:287383
      Gate; Nucleoside recognition

    RNA

    1. NR_037638.3 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) includes an alternate exon in the coding region 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)
      AA643687, AF305210, AK022042, AK304406, AL353787, AL356134

    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_000009.12 Reference GRCh38.p14 Primary Assembly

      Range
      84275457..84368727 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011518907.3XP_011517209.1  solute carrier family 28 member 3 isoform X2

      Conserved Domains (4) summary
      TIGR00804
      Location:118529
      nupC; nucleoside transporter
      pfam01773
      Location:123192
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07662
      Location:305529
      Nucleos_tra2_C; Na+ dependent nucleoside transporter C-terminus
      pfam07670
      Location:204300
      Gate; Nucleoside recognition
    2. XM_011518906.3XP_011517208.1  solute carrier family 28 member 3 isoform X1

      See identical proteins and their annotated locations for XP_011517208.1

      Conserved Domains (4) summary
      TIGR00804
      Location:229640
      nupC; nucleoside transporter
      pfam01773
      Location:234303
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07662
      Location:416640
      Nucleos_tra2_C; Na+ dependent nucleoside transporter C-terminus
      pfam07670
      Location:315411
      Gate; Nucleoside recognition
    3. XM_011518905.3XP_011517207.1  solute carrier family 28 member 3 isoform X1

      See identical proteins and their annotated locations for XP_011517207.1

      Conserved Domains (4) summary
      TIGR00804
      Location:229640
      nupC; nucleoside transporter
      pfam01773
      Location:234303
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07662
      Location:416640
      Nucleos_tra2_C; Na+ dependent nucleoside transporter C-terminus
      pfam07670
      Location:315411
      Gate; Nucleoside recognition
    4. XM_011518908.3XP_011517210.1  solute carrier family 28 member 3 isoform X4

      Conserved Domains (4) summary
      TIGR00804
      Location:11399
      nupC; nucleoside transporter
      pfam01773
      Location:1362
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07662
      Location:175399
      Nucleos_tra2_C; Na+ dependent nucleoside transporter C-terminus
      pfam07670
      Location:74170
      Gate; Nucleoside recognition
    5. XM_047423712.1XP_047279668.1  solute carrier family 28 member 3 isoform X3

    6. XM_011518910.3XP_011517212.1  solute carrier family 28 member 3 isoform X5

      See identical proteins and their annotated locations for XP_011517212.1

      Conserved Domains (2) summary
      pfam01773
      Location:234303
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07670
      Location:315370
      Gate; Nucleoside recognition
    7. XM_011518909.3XP_011517211.1  solute carrier family 28 member 3 isoform X5

      See identical proteins and their annotated locations for XP_011517211.1

      Conserved Domains (2) summary
      pfam01773
      Location:234303
      Nucleos_tra2_N; Na+ dependent nucleoside transporter N-terminus
      pfam07670
      Location:315370
      Gate; Nucleoside recognition

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060933.1 Alternate T2T-CHM13v2.0

      Range
      96425798..96519059 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054363509.1XP_054219484.1  solute carrier family 28 member 3 isoform X2

    2. XM_054363508.1XP_054219483.1  solute carrier family 28 member 3 isoform X1

    3. XM_054363507.1XP_054219482.1  solute carrier family 28 member 3 isoform X1

    4. XM_054363511.1XP_054219486.1  solute carrier family 28 member 3 isoform X4

    5. XM_054363510.1XP_054219485.1  solute carrier family 28 member 3 isoform X3

    6. XM_054363513.1XP_054219488.1  solute carrier family 28 member 3 isoform X5

    7. XM_054363512.1XP_054219487.1  solute carrier family 28 member 3 isoform X5