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    NLGN4Y neuroligin 4 Y-linked [ Homo sapiens (human) ]

    Gene ID: 22829, updated on 4-Jan-2025

    Summary

    Official Symbol
    NLGN4Yprovided by HGNC
    Official Full Name
    neuroligin 4 Y-linkedprovided by HGNC
    Primary source
    HGNC:HGNC:15529
    See related
    Ensembl:ENSG00000165246 MIM:400028; AllianceGenome:HGNC:15529
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    HNL4Y
    Summary
    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]
    Expression
    Biased expression in brain (RPKM 2.6), prostate (RPKM 1.8) and 13 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See NLGN4Y in Genome Data Viewer
    Location:
    Yq11.221
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) Y NC_000024.10 (14522616..14845654)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) Y NC_060948.1 (15429244..15752217)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) Y NC_000024.9 (16634496..16957534)

    Chromosome Y - NC_000024.10Genomic Context describing neighboring genes Neighboring gene patatin-like phospholipase domain containing 4 pseudogene 1 Neighboring gene patatin like phospholipase domain containing 4 pseudogene 1 Neighboring gene MED14-independent group 3 enhancer GRCh37_chrY:16452370-16453569 Neighboring gene AGK pseudogene 1 Neighboring gene NLGN4Y antisense RNA 1 Neighboring gene mediator complex subunit 13 pseudogene 1 Neighboring gene CYCS pseudogene 46

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Clone Names

    • KIAA0951

    Gene Ontology Provided by GOA

    Component Evidence Code Pubs
    located_in asymmetric, glutamatergic, excitatory synapse PubMed 
    located_in membrane PubMed 
    located_in plasma membrane  
    located_in postsynaptic density membrane  
    is_active_in postsynaptic specialization membrane  
    located_in presynapse  
    located_in symmetric, GABA-ergic, inhibitory synapse PubMed 

    General protein information

    Preferred Names
    neuroligin-4, Y-linked
    Names
    alternative HNL4Y

    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.

    Genomic

    1. NG_028212.1 RefSeqGene

      Range
      6922..328047
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001164238.1NP_001157710.1  neuroligin-4, Y-linked isoform 2 precursor

      See identical proteins and their annotated locations for NP_001157710.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) lacks several exons from the 3' end, and contains 2 alternate exons, including the 3' terminal exon, compared to variant 1. This results in a frame-shift, and a shorter isoform (2) with a distinct C-terminus compared to isoform 1.
      Source sequence(s)
      AF376804, BC032567, BF222878
      UniProtKB/TrEMBL
      H0Y7G6
      Related
      ENSP00000412638.1, ENST00000413217.1
      Conserved Domains (1) summary
      cl21494
      Location:42229
      Abhydrolase; alpha/beta hydrolases
    2. NM_001206850.2NP_001193779.1  neuroligin-4, Y-linked isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) contains several differences compared to variant 1, which results in translation initiation from an in-frame downstream AUG, and an isoform (3) with a shorter N-terminus compared to isoform 1.
      Source sequence(s)
      AB023168, AC011903, AF376804, DC360504
      Consensus CDS
      CCDS56619.1
      UniProtKB/Swiss-Prot
      Q8NFZ3
      Related
      ENSP00000372325.1, ENST00000382872.5
      Conserved Domains (2) summary
      COG0657
      Location:198
      Aes; Acetyl esterase/lipase [Lipid transport and metabolism]
      pfam00135
      Location:1422
      COesterase; Carboxylesterase family
    3. NM_001365584.1NP_001352513.1  neuroligin-4, Y-linked isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS94714.1
      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    4. NM_001365586.1NP_001352515.1  neuroligin-4, Y-linked isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS94714.1
      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Related
      ENSP00000496594.1, ENST00000643089.1
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    5. NM_001365588.1NP_001352517.1  neuroligin-4, Y-linked isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS94714.1
      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Related
      ENSP00000510011.1, ENST00000684976.1
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    6. NM_001365590.1NP_001352519.1  neuroligin-4, Y-linked isoform 1 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS14788.1
      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
      Conserved Domains (1) summary
      pfam00135
      Location:44590
      COesterase; Carboxylesterase family
    7. NM_001365591.1NP_001352520.1  neuroligin-4, Y-linked isoform 1 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS14788.1
      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
      Conserved Domains (1) summary
      pfam00135
      Location:44590
      COesterase; Carboxylesterase family
    8. NM_001365592.1NP_001352521.1  neuroligin-4, Y-linked isoform 1 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS14788.1
      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
      Conserved Domains (1) summary
      pfam00135
      Location:44590
      COesterase; Carboxylesterase family
    9. NM_001365593.1NP_001352522.1  neuroligin-4, Y-linked isoform 1 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS14788.1
      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
      Conserved Domains (1) summary
      pfam00135
      Location:44590
      COesterase; Carboxylesterase family
    10. NM_001394830.1NP_001381759.1  neuroligin-4, Y-linked isoform 4 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS94714.1
      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    11. NM_001394831.1NP_001381760.1  neuroligin-4, Y-linked isoform 1 precursor

      Status: REVIEWED

      Source sequence(s)
      AC010726, AC010879, AC010979, AC011903
      Consensus CDS
      CCDS14788.1
      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
      Related
      ENSP00000342535.5, ENST00000339174.9
      Conserved Domains (1) summary
      pfam00135
      Location:44590
      COesterase; Carboxylesterase family
    12. NM_014893.5NP_055708.3  neuroligin-4, Y-linked isoform 1 precursor

      See identical proteins and their annotated locations for NP_055708.3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AC011903, AF376804, BM722570
      Consensus CDS
      CCDS14788.1
      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
      Related
      ENSP00000348169.2, ENST00000355905.6
      Conserved Domains (1) summary
      pfam00135
      Location:44590
      COesterase; Carboxylesterase family

    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_000024.10 Reference GRCh38.p14 Primary Assembly

      Range
      14522616..14845654
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047442722.1XP_047298678.1  neuroligin-4, Y-linked isoform X5

      UniProtKB/TrEMBL
      H0Y7G6
    2. XM_006724874.3XP_006724937.1  neuroligin-4, Y-linked isoform X1

      See identical proteins and their annotated locations for XP_006724937.1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    3. XM_047442720.1XP_047298676.1  neuroligin-4, Y-linked isoform X2

      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
    4. XM_011531428.2XP_011529730.1  neuroligin-4, Y-linked isoform X1

      See identical proteins and their annotated locations for XP_011529730.1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    5. XM_047442719.1XP_047298675.1  neuroligin-4, Y-linked isoform X2

      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
    6. XM_011531430.3XP_011529732.1  neuroligin-4, Y-linked isoform X1

      See identical proteins and their annotated locations for XP_011529732.1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Related
      ENSP00000372320.1, ENST00000382868.5
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    7. XM_047442721.1XP_047298677.1  neuroligin-4, Y-linked isoform X5

      UniProtKB/TrEMBL
      H0Y7G6
    8. XM_017030041.2XP_016885530.1  neuroligin-4, Y-linked isoform X5

      UniProtKB/TrEMBL
      H0Y7G6
      Conserved Domains (1) summary
      cl21494
      Location:42229
      Abhydrolase; alpha/beta hydrolases
    9. XM_024452490.2XP_024308258.1  neuroligin-4, Y-linked isoform X1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    10. XM_011531427.3XP_011529729.1  neuroligin-4, Y-linked isoform X1

      See identical proteins and their annotated locations for XP_011529729.1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    11. XM_017030036.2XP_016885525.1  neuroligin-4, Y-linked isoform X2

      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
      Conserved Domains (1) summary
      pfam00135
      Location:44590
      COesterase; Carboxylesterase family
    12. XM_011531429.3XP_011529731.1  neuroligin-4, Y-linked isoform X1

      See identical proteins and their annotated locations for XP_011529731.1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
      Conserved Domains (1) summary
      pfam00135
      Location:44610
      COesterase; Carboxylesterase family
    13. XM_017030039.2XP_016885528.1  neuroligin-4, Y-linked isoform X3

      UniProtKB/TrEMBL
      A8K4S1, B3KP11
    14. XM_017030040.2XP_016885529.1  neuroligin-4, Y-linked isoform X4

      UniProtKB/Swiss-Prot
      Q8NFZ3
      Conserved Domains (2) summary
      COG0657
      Location:198
      Aes; Acetyl esterase/lipase [Lipid transport and metabolism]
      pfam00135
      Location:1422
      COesterase; Carboxylesterase family

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060948.1 Alternate T2T-CHM13v2.0

      Range
      15429244..15752217
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054328269.1XP_054184244.1  neuroligin-4, Y-linked isoform X5

      UniProtKB/TrEMBL
      H0Y7G6
    2. XM_054328260.1XP_054184235.1  neuroligin-4, Y-linked isoform X1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
    3. XM_054328264.1XP_054184239.1  neuroligin-4, Y-linked isoform X2

      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
    4. XM_054328261.1XP_054184236.1  neuroligin-4, Y-linked isoform X1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
    5. XM_054328263.1XP_054184238.1  neuroligin-4, Y-linked isoform X2

      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
    6. XM_054328257.1XP_054184232.1  neuroligin-4, Y-linked isoform X1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
    7. XM_054328268.1XP_054184243.1  neuroligin-4, Y-linked isoform X5

      UniProtKB/TrEMBL
      H0Y7G6
    8. XM_054328267.1XP_054184242.1  neuroligin-4, Y-linked isoform X5

      UniProtKB/TrEMBL
      H0Y7G6
    9. XM_054328259.1XP_054184234.1  neuroligin-4, Y-linked isoform X1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
    10. XM_054328256.1XP_054184231.1  neuroligin-4, Y-linked isoform X1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
    11. XM_054328262.1XP_054184237.1  neuroligin-4, Y-linked isoform X2

      UniProtKB/Swiss-Prot
      F5H6W0, Q14D08, Q7Z3T5, Q8N5B6, Q8NFZ3, Q9Y2F8
      UniProtKB/TrEMBL
      A8K4S1, B3KP11
    12. XM_054328258.1XP_054184233.1  neuroligin-4, Y-linked isoform X1

      UniProtKB/TrEMBL
      A6NMU8, B4DHI3
    13. XM_054328265.1XP_054184240.1  neuroligin-4, Y-linked isoform X3

      UniProtKB/TrEMBL
      A8K4S1, B3KP11
    14. XM_054328266.1XP_054184241.1  neuroligin-4, Y-linked isoform X4

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