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Aliases for NLGN4Y Gene

Aliases for NLGN4Y Gene

  • Neuroligin 4, Y-Linked 2 3
  • KIAA0951 4 6
  • Neuroligin 4, Y Linked 2
  • Neuroligin Y 4

External Ids for NLGN4Y Gene

Previous GeneCards Identifiers for NLGN4Y Gene

  • GC0YU990048
  • GC0YM9A0047
  • GC0XM005269
  • GC0YP015072
  • GC0YP015145
  • GC0YP016634
  • GC0YP011242

Summaries for NLGN4Y Gene

Entrez Gene Summary for NLGN4Y Gene

  • This gene encodes a type I membrane protein that belongs to the family of neuroligins, which are cell adhesion molecules present at the postsynaptic side of the synapse, and may be essential for the formation of functional synapses. Alternatively spliced transcript variants have been found for this gene.[provided by RefSeq, Mar 2011]

GeneCards Summary for NLGN4Y Gene

NLGN4Y (Neuroligin 4, Y-Linked) is a Protein Coding gene. GO annotations related to this gene include receptor activity and neurexin family protein binding. An important paralog of this gene is CES2.

UniProtKB/Swiss-Prot for NLGN4Y Gene

  • Putative neuronal cell surface protein involved in cell-cell-interactions

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for NLGN4Y Gene

Genomics for NLGN4Y Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for NLGN4Y Gene

14,522,608 bp from pter
14,845,650 bp from pter
323,043 bases
Plus strand

Genomic View for NLGN4Y Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for NLGN4Y Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for NLGN4Y Gene

No data available for Regulatory Elements for NLGN4Y Gene

Proteins for NLGN4Y Gene

  • Protein details for NLGN4Y Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Neuroligin-4, Y-linked
    Protein Accession:
    Secondary Accessions:
    • F5H6W0
    • Q14D08
    • Q7Z3T5
    • Q8N5B6
    • Q9Y2F8

    Protein attributes for NLGN4Y Gene

    816 amino acids
    Molecular mass:
    92021 Da
    Quaternary structure:
    • Homodimer. Interacts with NRXN1 in a calcium-dependent manner. Interacts through its C-terminus with DLG4/PSD-95 third PDZ domain (By similarity).
    • Sequence=BAA76795.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for NLGN4Y Gene


neXtProt entry for NLGN4Y Gene

Proteomics data for NLGN4Y Gene at MOPED

Post-translational modifications for NLGN4Y Gene

  • Glycosylation at Asn102 and Asn511
  • Modification sites at PhosphoSitePlus

Other Protein References for NLGN4Y Gene

No data available for DME Specific Peptides for NLGN4Y Gene

Domains for NLGN4Y Gene

Protein Domains for NLGN4Y Gene

Suggested Antigen Peptide Sequences for NLGN4Y Gene

Graphical View of Domain Structure for InterPro Entry



  • Q8NFZ3
  • Belongs to the type-B carboxylesterase/lipase family.
genes like me logo Genes that share domains with NLGN4Y: view

No data available for Gene Families for NLGN4Y Gene

Function for NLGN4Y Gene

Molecular function for NLGN4Y Gene

UniProtKB/Swiss-Prot Function:
Putative neuronal cell surface protein involved in cell-cell-interactions

Gene Ontology (GO) - Molecular Function for NLGN4Y Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004872 receptor activity IBA --
GO:0005515 protein binding IPI 17292328
GO:0016787 hydrolase activity --
GO:0042043 neurexin family protein binding IBA --
GO:0050839 cell adhesion molecule binding TAS 18923512
genes like me logo Genes that share ontologies with NLGN4Y: view

miRNA for NLGN4Y Gene

miRTarBase miRNAs that target NLGN4Y

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for NLGN4Y

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for NLGN4Y Gene

Localization for NLGN4Y Gene

Subcellular locations from UniProtKB/Swiss-Prot for NLGN4Y Gene

Cell membrane; Single-pass type I membrane protein. Cell junction, synapse, postsynaptic cell membrane, postsynaptic density.

Subcellular locations from

Jensen Localization Image for NLGN4Y Gene COMPARTMENTS Subcellular localization image for NLGN4Y gene
Compartment Confidence
plasma membrane 5
cytoskeleton 2
endoplasmic reticulum 1
golgi apparatus 1
nucleus 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for NLGN4Y Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005615 NOT extracellular space IBA --
GO:0005887 integral component of plasma membrane IBA --
GO:0009986 cell surface IBA --
GO:0014069 postsynaptic density IEA --
GO:0016020 membrane --
genes like me logo Genes that share ontologies with NLGN4Y: view

Pathways for NLGN4Y Gene

SuperPathways for NLGN4Y Gene

No Data Available

Interacting Proteins for NLGN4Y Gene

Gene Ontology (GO) - Biological Process for NLGN4Y Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007155 cell adhesion --
GO:0007158 neuron cell-cell adhesion TAS 18923512
GO:0007416 synapse assembly IBA --
GO:0007612 learning IMP 18628683
GO:0008152 metabolic process IBA --
genes like me logo Genes that share ontologies with NLGN4Y: view

No data available for Pathways by source for NLGN4Y Gene

Transcripts for NLGN4Y Gene

Unigene Clusters for NLGN4Y Gene

Neuroligin 4, Y-linked:
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for NLGN4Y

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for NLGN4Y Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5 ^ 6a · 6b · 6c · 6d · 6e ^ 7 ^ 8 ^ 9
SP3: - - - - - -
SP5: - -

Relevant External Links for NLGN4Y Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for NLGN4Y Gene

mRNA expression in normal human tissues for NLGN4Y Gene

Protein differential expression in normal tissues for NLGN4Y Gene

This gene is overexpressed in Brain (69.0).

Integrated Proteomics: protein expression from ProteomicsDB and MOPED for NLGN4Y Gene

SOURCE GeneReport for Unigene cluster for NLGN4Y Gene Hs.439199

mRNA Expression by UniProt/SwissProt for NLGN4Y Gene

Tissue specificity: Expressed in fetal and adult brain, prostate and testis.
genes like me logo Genes that share expressions with NLGN4Y: view

Expression partners for NLGN4Y Gene

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for NLGN4Y Gene

Orthologs for NLGN4Y Gene

This gene was present in the common ancestor of animals.

Orthologs for NLGN4Y Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia NLGN4Y 35
  • 84.07 (n)
  • 96.07 (a)
-- 36
  • 98 (a)
(Canis familiaris)
Mammalia NLGN4X 35
  • 87.83 (n)
  • 96.94 (a)
(Pan troglodytes)
Mammalia NLGN4Y 35
  • 98.49 (n)
  • 98.16 (a)
  • 98 (a)
(Monodelphis domestica)
Mammalia NLGN4 36
  • 94 (a)
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 94 (a)
(Gallus gallus)
Aves NLGN4X 35
  • 80.51 (n)
  • 94.36 (a)
NLGN4 36
  • 92 (a)
(Anolis carolinensis)
Reptilia NLGN4 36
  • 91 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia nlgn4x 35
  • 75.97 (n)
  • 89.79 (a)
(Danio rerio)
Actinopterygii nlgn4b 35
  • 70.74 (n)
  • 78.24 (a)
nlgn4a 36
  • 80 (a)
nlgn4b 36
  • 77 (a)
fruit fly
(Drosophila melanogaster)
Insecta neuroligin 35
  • 47.47 (n)
  • 38.86 (a)
(Caenorhabditis elegans)
Secernentea nlg-1 35
  • 46.42 (n)
  • 36.11 (a)
Species with no ortholog for NLGN4Y:
  • 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • wheat (Triticum aestivum)

Evolution for NLGN4Y Gene

Gene Tree for NLGN4Y (if available)
Gene Tree for NLGN4Y (if available)

Paralogs for NLGN4Y Gene

Paralogs for NLGN4Y Gene

Selected SIMAP similar genes for NLGN4Y Gene using alignment to 3 proteins: Pseudogenes for NLGN4Y Gene

genes like me logo Genes that share paralogs with NLGN4Y: view

Variants for NLGN4Y Gene

Sequence variations from dbSNP and Humsavar for NLGN4Y Gene

SNP ID Clin Chr 0Y pos Sequence Context AA Info Type MAF
rs437785 -- 14,571,558(-) AACAG(A/C)ATGAA intron-variant
rs1818843 -- 14,751,784(+) catcc(C/G/T)cagta intron-variant
rs2115848 -- 14,692,972(+) ACTTA(A/G)GAAAG intron-variant
rs2189553 -- 14,714,831(-) GTTCA(C/T)TCTGA intron-variant
rs2191307 -- 14,552,037(-) tatta(C/G)tctgg intron-variant

Structural Variations from Database of Genomic Variants (DGV) for NLGN4Y Gene

Variant ID Type Subtype PubMed ID
esv1500453 OTHER Inversion 17803354
nsv510572 CNV Loss 20534489

Relevant External Links for NLGN4Y Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for NLGN4Y Gene

Disorders for NLGN4Y Gene

(2) University of Copenhagen DISEASES for NLGN4Y Gene

Relevant External Links for NLGN4Y

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with NLGN4Y: view

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , Novoseek inferred disease relationships and Genatlas for NLGN4Y Gene

Publications for NLGN4Y Gene

  1. Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10231032) Nagase T. … Ohara O. (DNA Res. 1999) 2 3 4
  2. Analysis of four neuroligin genes as candidates for autism. (PMID: 16077734) Ylisaukko-oja T. … JAorvelAo I. (Eur. J. Hum. Genet. 2005) 3 23
  3. Analysis of the neuroligin 4Y gene in patients with autism. (PMID: 18628683) Yan J. … Sommer S.S. (Psychiatr. Genet. 2008) 3 23
  4. Mutations of the X-linked genes encoding neuroligins NLGN3 and NLGN4 are associated with autism. (PMID: 12669065) Jamain S. … Van Maldergem L. (Nat. Genet. 2003) 3 4
  5. The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes. (PMID: 12815422) Skaletsky H. … Page D.C. (Nature 2003) 3 4

Products for NLGN4Y Gene

Sources for NLGN4Y Gene

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