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SLC6A16 solute carrier family 6 member 16 [ Homo sapiens (human) ]

Gene ID: 28968, updated on 10-Dec-2024

Summary

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Official Symbol
SLC6A16provided by HGNC
Official Full Name
solute carrier family 6 member 16provided by HGNC
Primary source
HGNC:HGNC:13622
See related
Ensembl:ENSG00000063127 MIM:607972; AllianceGenome:HGNC:13622
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
NT5; NTT5
Summary
SLC6A16 shows structural characteristics of an Na(+)- and Cl(-)-dependent neurotransmitter transporter, including 12 transmembrane (TM) domains, intracellular N and C termini, and large extracellular loops containing multiple N-glycosylation sites.[supplied by OMIM, Mar 2008]
Expression
Biased expression in testis (RPKM 36.6) and ovary (RPKM 1.3) See more
Orthologs
mouse all
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Genomic context

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See SLC6A16 in Genome Data Viewer
Location:
19q13.33
Exon count:
17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (49289638..49340330, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (52287044..52337761, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (49792895..49828448, complement)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985340 Neighboring gene solute carrier family 6 member 21, pseudogene Neighboring gene SUMO1 pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14930 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:49816848-49817070 Neighboring gene microRNA 4324 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14931 Neighboring gene ReSE screen-validated silencer GRCh37_chr19:49830555-49830706 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14933 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14934 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14935 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:49842721-49843696 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 14936 Neighboring gene CD37 molecule Neighboring gene TEA domain transcription factor 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:49863002-49863502 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:49864048-49864757 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:49864758-49865466 Neighboring gene uncharacterized LOC101928295 Neighboring gene dickkopf like acrosomal protein 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

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Related articles in PubMed

  1. Cloning and characterization of human NTT5 and v7-3: two orphan transporters of the Na+/Cl- -dependent neurotransmitter transporter gene family. Farmer MK, et al. Genomics, 2000 Dec 1. PMID 11112352
  2. Neurotransmitter transporters in the central nervous system. Masson J, et al. Pharmacol Rev, 1999 Sep. PMID 10471414
  3. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. Wiemann S, et al. Genome Res, 2001 Mar. PMID 11230166, Free PMC Article
  4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

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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General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables neurotransmitter transmembrane transporter activity NAS
Non-traceable Author Statement
more info
 PubMed 
enables symporter activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in amino acid transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in neurotransmitter transport NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in sodium ion 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
  

General protein information

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Preferred Names
orphan sodium- and chloride-dependent neurotransmitter transporter NTT5
Names
CTC-301O7.4
solute carrier family 6 (neurotransmitter transporter), member 16

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_014037.3 → NP_054756.2  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5

    See identical proteins and their annotated locations for NP_054756.2

    Status: VALIDATED

    Source sequence(s)
    AL136856, AW451672, BG772801
    Consensus CDS
    CCDS42590.1
    UniProtKB/Swiss-Prot
    Q8IYV4, Q9GZN6, Q9Y5I9
    Related
    ENSP00000338627.3, ENST00000335875.9
    Conserved Domains (1) summary
    cd11502
    Location:103 → 673
    SLC6sbd_NTT5; Neurotransmitter transporter 5; solute-binding domain

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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    49289638..49340330 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047438703.1 → XP_047294659.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X3

  2. XM_047438702.1 → XP_047294658.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X1

  3. XM_011526860.3 → XP_011525162.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X4

    Conserved Domains (1) summary
    cd11502
    Location:125 → 695
    SLC6sbd_NTT5; Neurotransmitter transporter 5; solute-binding domain

  4. XM_047438701.1 → XP_047294657.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X1

  5. XM_006723168.4 → XP_006723231.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X5

    See identical proteins and their annotated locations for XP_006723231.1

    UniProtKB/Swiss-Prot
    Q8IYV4, Q9GZN6, Q9Y5I9
    Conserved Domains (1) summary
    cd11502
    Location:103 → 673
    SLC6sbd_NTT5; Neurotransmitter transporter 5; solute-binding domain

  6. XM_047438704.1 → XP_047294660.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X6

  7. XM_011526859.4 → XP_011525161.3  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X2

  8. XM_024451472.2 → XP_024307240.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X5

    UniProtKB/Swiss-Prot
    Q8IYV4, Q9GZN6, Q9Y5I9
    Conserved Domains (1) summary
    cd11502
    Location:103 → 673
    SLC6sbd_NTT5; Neurotransmitter transporter 5; solute-binding domain

  9. XM_005258820.4 → XP_005258877.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X5

    See identical proteins and their annotated locations for XP_005258877.1

    UniProtKB/Swiss-Prot
    Q8IYV4, Q9GZN6, Q9Y5I9
    Conserved Domains (1) summary
    cd11502
    Location:103 → 673
    SLC6sbd_NTT5; Neurotransmitter transporter 5; solute-binding domain

  10. XM_011526861.4 → XP_011525163.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X6

    Conserved Domains (1) summary
    cd11502
    Location:1 → 526
    SLC6sbd_NTT5; Neurotransmitter transporter 5; solute-binding domain

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    52287044..52337761 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054320738.1 → XP_054176713.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X3

  2. XM_054320739.1 → XP_054176714.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X4

  3. XM_054320741.1 → XP_054176716.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X5

    UniProtKB/Swiss-Prot
    Q8IYV4, Q9GZN6, Q9Y5I9

  4. XM_054320744.1 → XP_054176719.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X6

  5. XM_054320737.1 → XP_054176712.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X2

  6. XM_054320742.1 → XP_054176717.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X5

    UniProtKB/Swiss-Prot
    Q8IYV4, Q9GZN6, Q9Y5I9

  7. XM_054320740.1 → XP_054176715.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X5

    UniProtKB/Swiss-Prot
    Q8IYV4, Q9GZN6, Q9Y5I9

  8. XM_054320743.1 → XP_054176718.1  orphan sodium- and chloride-dependent neurotransmitter transporter NTT5 isoform X6

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9GZN6.1 GenPept UniProtKB/Swiss-Prot:Q9GZN6

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