Aliases for SLC44A3 Gene

Aliases for SLC44A3 Gene

  • Solute Carrier Family 44 Member 3 2 3 4 5
  • Choline Transporter-Like Protein 3 3 4
  • CTL3 3 4
  • Solute Carrier Family 44, Member 3 2
  • Solute Carrier Family, Member 3 2

External Ids for SLC44A3 Gene

Previous GeneCards Identifiers for SLC44A3 Gene

  • GC01P094998
  • GC01P095286
  • GC01P093407

Summaries for SLC44A3 Gene

GeneCards Summary for SLC44A3 Gene

SLC44A3 (Solute Carrier Family 44 Member 3) is a Protein Coding gene. Among its related pathways are Transport of glucose and other sugars, bile salts and organic acids, metal ions and amine compounds and Synthesis of PC. An important paralog of this gene is SLC44A1.

Additional gene information for SLC44A3 Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SLC44A3 Gene

Genomics for SLC44A3 Gene

GeneHancer (GH) Regulatory Elements for SLC44A3 Gene

Promoters and enhancers for SLC44A3 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J094819 Promoter/Enhancer 2 EPDnew Ensembl ENCODE CraniofacialAtlas 773 +0.9 910 4.5 CTCF RBPJ HLF HNF1A KAT8 GLIS2 ZBTB8A PRDM10 ZEB2 SP1 SLC44A3 SLC44A3-AS1 RF00017-277
GH01J094824 Promoter 0.3 EPDnew 750.6 +4.1 4142 0.1 SLC44A3 RF00017-277 SLC44A3-AS1
GH01J094753 Enhancer 1.6 FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 24.2 -64.5 -64450 5.8 RBPJ NR2F6 MYC HLF L3MBTL2 MAX ZNF652 ELF3 SP1 MAFK SLC44A3 F3 SLC44A3-AS1 ARHGAP29 RWDD3 MIR378G
GH01J094792 Enhancer 1 FANTOM5 ENCODE 29.5 -27.3 -27281 2.1 POLR2A ATF1 ETV6 CEBPG IKZF1 CEBPA GATAD2A RXRB CEBPB IKZF2 SLC44A3 F3 SLC44A3-AS1 MIR378G
GH01J094805 Enhancer 1.2 Ensembl ENCODE CraniofacialAtlas 23.1 -12.8 -12831 4.2 CTCF RBPJ CTBP1 NR2F1 NR2F6 RAD21 TEAD4 RERE CBFA2T2 MLLT1 SLC44A3 F3 ABCD3 SLC44A3-AS1 MIR378G
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SLC44A3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the SLC44A3 gene promoter:
  • Egr-2
  • HOXA9
  • HOXA9B
  • Meis-1
  • Meis-1b

Genomic Locations for SLC44A3 Gene

Genomic Locations for SLC44A3 Gene
74,906 bases
Plus strand
74,905 bases
Plus strand

Genomic View for SLC44A3 Gene

Genes around SLC44A3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SLC44A3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SLC44A3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLC44A3 Gene

Proteins for SLC44A3 Gene

  • Protein details for SLC44A3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Choline transporter-like protein 3
    Protein Accession:
    Secondary Accessions:
    • B4DVY4
    • B4E1M4
    • B7ZA08
    • E9PJH2
    • E9PJY8
    • Q6UWT1
    • Q7Z6C5
    • Q9BWY7

    Protein attributes for SLC44A3 Gene

    653 amino acids
    Molecular mass:
    73783 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAH33858.2; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=AAQ89022.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for SLC44A3 Gene

neXtProt entry for SLC44A3 Gene

Post-translational modifications for SLC44A3 Gene

  • Glycosylation at Asn151, Asn136, Asn412, Asn503, and Asn521
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for SLC44A3 Gene

Domains & Families for SLC44A3 Gene

Gene Families for SLC44A3 Gene

Human Protein Atlas (HPA):
  • Cancer-related genes
  • Predicted intracellular proteins
  • Predicted membrane proteins
  • Transporters

Protein Domains for SLC44A3 Gene


Suggested Antigen Peptide Sequences for SLC44A3 Gene

GenScript: Design optimal peptide antigens:
  • Solute carrier family 44 member 3 (CTL3_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the CTL (choline transporter-like) family.
  • Belongs to the CTL (choline transporter-like) family.
genes like me logo Genes that share domains with SLC44A3: view

Function for SLC44A3 Gene

Phenotypes From GWAS Catalog for SLC44A3 Gene

Gene Ontology (GO) - Molecular Function for SLC44A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with SLC44A3: view
genes like me logo Genes that share phenotypes with SLC44A3: view

Animal Models for SLC44A3 Gene

MGI Knock Outs for SLC44A3:
  • Slc44a3 Slc44a3<tm1b(EUCOMM)Wtsi>

Animal Model Products

  • Taconic Biosciences Mouse Models for SLC44A3

CRISPR Products

Clone Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for SLC44A3 Gene

Localization for SLC44A3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLC44A3 Gene

Membrane; Multi-pass membrane protein.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SLC44A3 gene
Compartment Confidence
plasma membrane 5

Gene Ontology (GO) - Cellular Components for SLC44A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SLC44A3: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for SLC44A3 Gene

Pathways & Interactions for SLC44A3 Gene

genes like me logo Genes that share pathways with SLC44A3: view

Pathways by source for SLC44A3 Gene

Interacting Proteins for SLC44A3 Gene

Gene Ontology (GO) - Biological Process for SLC44A3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006656 phosphatidylcholine biosynthetic process TAS --
GO:0055085 transmembrane transport TAS --
genes like me logo Genes that share ontologies with SLC44A3: view

No data available for SIGNOR curated interactions for SLC44A3 Gene

Drugs & Compounds for SLC44A3 Gene

(2) Drugs for SLC44A3 Gene - From: DrugBank and HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Choline Approved Nutra Transporter, substrate 218
Choline salicylate Approved Nutra Transporter, substrate 0
genes like me logo Genes that share compounds with SLC44A3: view

Transcripts for SLC44A3 Gene

CRISPR Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for SLC44A3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17
SP1: - -
SP2: - -

Relevant External Links for SLC44A3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for SLC44A3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SLC44A3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SLC44A3 Gene

This gene is overexpressed in Colon - Transverse (x4.7) and Pancreas (x4.0).

Protein differential expression in normal tissues from HIPED for SLC44A3 Gene

This gene is overexpressed in Retina (42.5) and Pancreas (26.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SLC44A3 Gene

Protein tissue co-expression partners for SLC44A3 Gene

NURSA nuclear receptor signaling pathways regulating expression of SLC44A3 Gene:


SOURCE GeneReport for Unigene cluster for SLC44A3 Gene:


Evidence on tissue expression from TISSUES for SLC44A3 Gene

  • Intestine(4.5)
  • Stomach(4.2)
  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with SLC44A3: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SLC44A3 Gene

Orthologs for SLC44A3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SLC44A3 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia SLC44A3 33 32
  • 99.74 (n)
(Bos Taurus)
Mammalia SLC44A3 33 32
  • 88.08 (n)
(Canis familiaris)
Mammalia SLC44A3 33 32
  • 86.64 (n)
(Mus musculus)
Mammalia Slc44a3 17 33 32
  • 82.39 (n)
(Rattus norvegicus)
Mammalia Slc44a3 32
  • 81.57 (n)
(Monodelphis domestica)
Mammalia SLC44A3 33
  • 77 (a)
(Ornithorhynchus anatinus)
Mammalia -- 33
  • 75 (a)
-- 33
  • 74 (a)
(Gallus gallus)
Aves SLC44A3 33 32
  • 69.61 (n)
(Anolis carolinensis)
Reptilia SLC44A3 33
  • 62 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG1311 33
  • 30 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PNS1 33
  • 16 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.1906 33
  • 39 (a)
Species where no ortholog for SLC44A3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for SLC44A3 Gene

Gene Tree for SLC44A3 (if available)
Gene Tree for SLC44A3 (if available)
Evolutionary constrained regions (ECRs) for SLC44A3: view image

Paralogs for SLC44A3 Gene

Paralogs for SLC44A3 Gene

(3) SIMAP similar genes for SLC44A3 Gene using alignment to 5 proteins:

  • F8W7F3_HUMAN
  • H0YD35_HUMAN
  • H0YDW5_HUMAN Pseudogenes for SLC44A3 Gene

genes like me logo Genes that share paralogs with SLC44A3: view

Variants for SLC44A3 Gene

Sequence variations from dbSNP and Humsavar for SLC44A3 Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000000264 -- 94,873,859(+) A/T genic_downstream_transcript_variant, intron_variant
rs1000039889 -- 94,849,135(+) T/A/C intron_variant
rs1000091701 -- 94,833,923(+) G/A intron_variant
rs1000128873 -- 94,886,085(+) C/A genic_downstream_transcript_variant, intron_variant
rs1000145508 -- 94,888,286(+) T/A genic_downstream_transcript_variant, intron_variant

Structural Variations from Database of Genomic Variants (DGV) for SLC44A3 Gene

Variant ID Type Subtype PubMed ID
esv3307879 CNV mobile element insertion 20981092
esv3341362 CNV insertion 20981092
esv3357039 CNV insertion 20981092
esv3382096 CNV insertion 20981092
nsv506949 OTHER sequence alteration 20534489

Variation tolerance for SLC44A3 Gene

Residual Variation Intolerance Score: 88.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.41; 42.65% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SLC44A3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SLC44A3 Gene

Disorders for SLC44A3 Gene

Additional Disease Information for SLC44A3

Genetic Association Database
Human Genome Epidemiology Navigator
ATLAS of Genetics and Cytogenetics in Oncology and Haematology

No disorders were found for SLC44A3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for SLC44A3 Gene

Publications for SLC44A3 Gene

  1. The secreted protein discovery initiative (SPDI), a large-scale effort to identify novel human secreted and transmembrane proteins: a bioinformatics assessment. (PMID: 12975309) Clark HF … Gray A (Genome research 2003) 2 3 4 56
  2. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 43 56
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 56
  4. Molecular characterization of the family of choline transporter-like proteins and their splice variants. (PMID: 15715662) Traiffort E … Meunier FM (Journal of neurochemistry 2005) 2 3 56
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 56

Products for SLC44A3 Gene

Sources for SLC44A3 Gene