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SLC46A2 solute carrier family 46 member 2 [ Homo sapiens (human) ]

Gene ID: 57864, updated on 5-Mar-2024

Summary

Official Symbol
SLC46A2provided by HGNC
Official Full Name
solute carrier family 46 member 2provided by HGNC
Primary source
HGNC:HGNC:16055
See related
Ensembl:ENSG00000119457 MIM:608956; AllianceGenome:HGNC:16055
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
Ly110; TSCOT
Summary
Predicted to enable transmembrane transporter activity. Involved in positive regulation of nucleotide-binding activity oligomerization domain containing 1 signaling pathway. Predicted to be located in cell surface and plasma membrane. Predicted to be integral component of membrane. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in lung (RPKM 9.2), skin (RPKM 5.1) and 6 other tissues See more
Orthologs
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Genomic context

See SLC46A2 in Genome Data Viewer
Location:
9q32
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (112878920..112890876, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (125050362..125072489, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (115641200..115653156, complement)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28826 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20194 Neighboring gene INTS3 and NABP interacting protein Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28827 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28828 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115512887-115513808 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115513809-115514728 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr9:115516859-115517473 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115517474-115518087 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115518123-115518802 Neighboring gene SNX30 divergent transcript Neighboring gene sorting nexin family member 30 Neighboring gene Sharpr-MPRA regulatory region 12854 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115566289-115566914 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:115565661-115566288 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:115572830-115573740 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20196 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28830 Neighboring gene MPRA-validated peak7321 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20197 Neighboring gene NANOG hESC enhancer GRCh37_chr9:115608506-115609059 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:115609080-115609580 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:115610366-115610938 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:115628995-115629496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28831 Neighboring gene major urinary protein, pseudogene Neighboring gene zinc finger protein 883

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

General gene information

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cyclic-GMP-AMP transmembrane transporter activity IDA
Inferred from Direct Assay
more info
PubMed 
enables symporter activity NAS
Non-traceable Author Statement
more info
PubMed 
enables transmembrane transporter activity IBA
Inferred from Biological aspect of Ancestor
more info
 
Component Evidence Code Pubs
located_in cell surface IEA
Inferred from Electronic Annotation
more info
 
located_in endosome membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in membrane NAS
Non-traceable Author Statement
more info
PubMed 
located_in plasma membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
solute carrier family 46 member 2
Names
thymic stromal co-transporter
thymic stromal cotransporter homolog

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_033051.4NP_149040.3  solute carrier family 46 member 2

    See identical proteins and their annotated locations for NP_149040.3

    Status: VALIDATED

    Source sequence(s)
    AF242557, BC048285, DA593062
    Consensus CDS
    CCDS6786.1
    UniProtKB/Swiss-Prot
    B1ALK1, Q86VT0, Q96NE2, Q9BY10
    Related
    ENSP00000363345.4, ENST00000374228.5
    Conserved Domains (2) summary
    pfam07690
    Location:84421
    MFS_1; Major Facilitator Superfamily
    cl21472
    Location:282453
    MFS; The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of ...

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
    112878920..112890876 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047423640.1XP_047279596.1  solute carrier family 46 member 2 isoform X1

    UniProtKB/TrEMBL
    S4R3Y2
    Related
    ENSP00000474847.1, ENST00000491462.2

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    125050362..125072489 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054363388.1XP_054219363.1  solute carrier family 46 member 2 isoform X1

    UniProtKB/TrEMBL
    S4R3Y2