LOCUS       NM_181303               3975 bp    mRNA    linear   PRI 08-JUN-2024
DEFINITION  Homo sapiens neuroligin 3 (NLGN3), transcript variant 1, mRNA.
ACCESSION   NM_181303
VERSION     NM_181303.2
KEYWORDS    RefSeq; MANE Select.
SOURCE      Homo sapiens (human)
  ORGANISM  Homo sapiens
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini;
            Catarrhini; Hominidae; Homo.
REFERENCE   1  (bases 1 to 3975)
  AUTHORS   Li,J., Zhang,B., Feng,Z., An,D., Zhou,Z., Wan,C., Hu,Y., Sun,Y.,
            Wang,Y., Liu,X., Wei,W., Yang,X., Meng,J., Che,M., Sheng,Y., Wu,B.,
            Wen,L., Huang,F., Li,Y. and Yang,K.
  TITLE     Stabilization of KPNB1 by deubiquitinase USP7 promotes glioblastoma
            progression through the YBX1-NLGN3 axis
  JOURNAL   J Exp Clin Cancer Res 43 (1), 28 (2024)
   PUBMED   38254206
  REMARK    GeneRIF: Stabilization of KPNB1 by deubiquitinase USP7 promotes
            glioblastoma progression through the YBX1-NLGN3 axis.
            Publication Status: Online-Only
REFERENCE   2  (bases 1 to 3975)
  AUTHORS   Diamanti,T., Trobiani,L., Mautone,L., Serafini,F., Gioia,R.,
            Ferrucci,L., Lauro,C., Bianchi,S., Perfetto,C., Guglielmo,S.,
            Sollazzo,R., Giorda,E., Setini,A., Ragozzino,D., Miranda,E.,
            Comoletti,D., Di Angelantonio,S., Cacci,E. and De Jaco,A.
  TITLE     Glucocorticoids rescue cell surface trafficking of R451C
            Neuroligin3 and enhance synapse formation
  JOURNAL   Traffic 25 (1), e12930 (2024)
   PUBMED   38272450
  REMARK    GeneRIF: Glucocorticoids rescue cell surface trafficking of R451C
            Neuroligin3 and enhance synapse formation.
REFERENCE   3  (bases 1 to 3975)
  AUTHORS   Chen,Z.G., Shi,X., Zhang,X.X., Yang,F.F., Li,K.R., Fang,Q., Cao,C.,
            Chen,X.H. and Peng,Y.
  TITLE     Neuron-secreted NLGN3 ameliorates ischemic brain injury via
            activating Galphai1/3-Akt signaling
  JOURNAL   Cell Death Dis 14 (10), 700 (2023)
   PUBMED   37880221
  REMARK    GeneRIF: Neuron-secreted NLGN3 ameliorates ischemic brain injury
            via activating Galphai1/3-Akt signaling.
            Publication Status: Online-Only
REFERENCE   4  (bases 1 to 3975)
  AUTHORS   Oleari,R., Lettieri,A., Manzini,S., Paganoni,A., Andre,V.,
            Grazioli,P., Busnelli,M., Duminuco,P., Vitobello,A., Philippe,C.,
            Bizaoui,V., Storr,H.L., Amoruso,F., Memi,F., Vezzoli,V., Massa,V.,
            Scheiffele,P., Howard,S.R. and Cariboni,A.
  TITLE     Autism-linked NLGN3 is a key regulator of gonadotropin-releasing
            hormone deficiency
  JOURNAL   Dis Model Mech 16 (3) (2023)
   PUBMED   36810932
  REMARK    GeneRIF: Autism-linked NLGN3 is a key regulator of
            gonadotropin-releasing hormone deficiency.
REFERENCE   5  (bases 1 to 3975)
  AUTHORS   Jamain,S., Quach,H., Betancur,C., Rastam,M., Colineaux,C.,
            Gillberg,I.C., Soderstrom,H., Giros,B., Leboyer,M., Gillberg,C. and
            Bourgeron,T.
  CONSRTM   Paris Autism Research International Sibpair Study
  TITLE     Mutations of the X-linked genes encoding neuroligins NLGN3 and
            NLGN4 are associated with autism
  JOURNAL   Nat Genet 34 (1), 27-29 (2003)
   PUBMED   12669065
  REMARK    GeneRIF: report mutations in two X-linked genes encoding
            neuroligins NLGN3 and NLGN4 in siblings with autism-spectrum
            disorders
REFERENCE   6  (bases 1 to 3975)
  AUTHORS   Cantallops,I. and Cline,H.T.
  TITLE     Synapse formation: if it looks like a duck and quacks like a duck
            ...
  JOURNAL   Curr Biol 10 (17), R620-R623 (2000)
   PUBMED   10996085
  REMARK    Review article
REFERENCE   7  (bases 1 to 3975)
  AUTHORS   Philibert,R.A., Winfield,S.L., Sandhu,H.K., Martin,B.M. and
            Ginns,E.I.
  TITLE     The structure and expression of the human neuroligin-3 gene
  JOURNAL   Gene 246 (1-2), 303-310 (2000)
   PUBMED   10767552
REFERENCE   8  (bases 1 to 3975)
  AUTHORS   Missler,M., Fernandez-Chacon,R. and Sudhof,T.C.
  TITLE     The making of neurexins
  JOURNAL   J Neurochem 71 (4), 1339-1347 (1998)
   PUBMED   9751164
  REMARK    Review article
REFERENCE   9  (bases 1 to 3975)
  AUTHORS   Irie,M., Hata,Y., Takeuchi,M., Ichtchenko,K., Toyoda,A., Hirao,K.,
            Takai,Y., Rosahl,T.W. and Sudhof,T.C.
  TITLE     Binding of neuroligins to PSD-95
  JOURNAL   Science 277 (5331), 1511-1515 (1997)
   PUBMED   9278515
REFERENCE   10 (bases 1 to 3975)
  AUTHORS   Ichtchenko,K., Nguyen,T. and Sudhof,T.C.
  TITLE     Structures, alternative splicing, and neurexin binding of multiple
            neuroligins
  JOURNAL   J Biol Chem 271 (5), 2676-2682 (1996)
   PUBMED   8576240
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from BP201014.1, AF217411.1,
            AF217412.1 and BC051715.1.
            This sequence is a reference standard in the RefSeqGene project.
            
            On Jun 2, 2019 this sequence version replaced NM_181303.1.
            
            Summary: This gene encodes a member of a family of neuronal cell
            surface proteins. Members of this family may act as splice
            site-specific ligands for beta-neurexins and may be involved in the
            formation and remodeling of central nervous system synapses.
            Mutations in this gene may be associated with autism and Asperger
            syndrome. Multiple transcript variants encoding distinct isoforms
            have been identified for this gene. [provided by RefSeq, Oct 2009].
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: SRR1660807.196119.1,
                                           SRR1660805.87107.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1968968, SAMEA2145245
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000358741.4/ ENSP00000351591.4
            RefSeq Select criteria :: based on manual assertion, conservation,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-29                BP201014.1         11-39
            30-278              AF217411.1         1-249
            279-1984            AF217412.1         1-1706
            1985-3892           AF217411.1         1896-3803
            3893-3975           BC051715.1         3774-3856
FEATURES             Location/Qualifiers
     source          1..3975
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="X"
                     /map="Xq13.1"
     gene            1..3975
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /note="neuroligin 3"
                     /db_xref="GeneID:54413"
                     /db_xref="HGNC:HGNC:14289"
                     /db_xref="MIM:300336"
     exon            1..124
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     exon            125..781
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     CDS             325..2871
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /note="isoform 1 precursor is encoded by transcript
                     variant 1; gliotactin homolog"
                     /codon_start=1
                     /product="neuroligin-3 isoform 1 precursor"
                     /protein_id="NP_851820.1"
                     /db_xref="CCDS:CCDS55441.1"
                     /db_xref="GeneID:54413"
                     /db_xref="HGNC:HGNC:14289"
                     /db_xref="MIM:300336"
                     /translation="MWLRLGPPSLSLSPKPTVGRSLCLTLWFLSLALRASTQAPAPTV
                     NTHFGKLRGARVPLPSEILGPVDQYLGVPYAAPPIGEKRFLPPEPPPSWSGIRNATHF
                     PPVCPQNIHTAVPEVMLPVWFTANLDIVATYIQEPNEDCLYLNVYVPTEDVKRISKEC
                     ARKPNKKICRKGGSGAKKQGEDLADNDGDEDEDIRDSGAKPVMVYIHGGSYMEGTGNM
                     IDGSILASYGNVIVITLNYRVGVLGFLSTGDQAAKGNYGLLDQIQALRWVSENIAFFG
                     GDPRRITVFGSGIGASCVSLLTLSHHSEGLFQRAIIQSGSALSSWAVNYQPVKYTSLL
                     ADKVGCNVLDTVDMVDCLRQKSAKELVEQDIQPARYHVAFGPVIDGDVIPDDPEILME
                     QGEFLNYDIMLGVNQGEGLKFVEGVVDPEDGVSGTDFDYSVSNFVDNLYGYPEGKDTL
                     RETIKFMYTDWADRDNPETRRKTLVALFTDHQWVEPSVVTADLHARYGSPTYFYAFYH
                     HCQSLMKPAWSDAAHGDEVPYVFGVPMVGPTDLFPCNFSKNDVMLSAVVMTYWTNFAK
                     TGDPNKPVPQDTKFIHTKANRFEEVAWSKYNPRDQLYLHIGLKPRVRDHYRATKVAFW
                     KHLVPHLYNLHDMFHYTSTTTKVPPPDTTHSSHITRRPNGKTWSTKRPAISPAYSNEN
                     AQGSWNGDQDAGPLLVENPRDYSTELSVTIAVGASLLFLNVLAFAALYYRKDKRRQEP
                     LRQPSPQRGAGAPELGAAPEEELAALQLGPTHHECEAGPPHDTLRLTALPDYTLTLRR
                     SPDDIPLMTPNTITMIPNSLVGLQTLHPYNTFAAGFNSTGLPHSHSTTRV"
     exon            782..841
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     exon            842..901
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     exon            902..1051
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     exon            1052..1237
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     exon            1238..2027
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     exon            2028..3975
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /inference="alignment:Splign:2.1.0"
     regulatory      3949..3954
                     /regulatory_class="polyA_signal_sequence"
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /note="hexamer: AATAAA"
     polyA_site      3975
                     /gene="NLGN3"
                     /gene_synonym="HNL3"
                     /note="major polyA site"
ORIGIN      
        1 gcgggcacag cagccaggct gccggagagc tgatctcggg gattcgggtg cggagccctt
       61 ggcctggagg cgatatgggt ggtccgtggc ccggttcagt cgcttgcagc agcccgggga
      121 acaggcctgt ctggccctga gggagtcccc tttctgaagc tgtggtgctt ggacgacctg
      181 ctctctacat tgctgggcac ctgtaggtgt ccctcgagag ctcagttttg aggttcaagt
      241 cagtgtggcc atgaaggggc tgcctattgg gctgatgctg tgaccctgga gtctgcctct
      301 cctgccagtc cccctgcccg gaacatgtgg ctgcggcttg gcccgccctc gctgtccctg
      361 agccccaagc ccacggttgg caggagcctg tgcctcaccc tgtggttcct cagtttggcg
      421 ctgagggcca gtacccaggc cccagcaccc acagtcaaca ctcactttgg gaagctaagg
      481 ggtgcccgag taccactgcc cagtgagatc ctggggcctg tggaccaata cctgggggtg
      541 ccctacgcag ctcccccgat cggcgagaaa cgtttcctgc cccctgaacc acccccatcc
      601 tggtcgggca tccggaacgc cacacacttt cccccagtgt gcccccagaa catccacaca
      661 gctgtgcccg aagtcatgct gccggtctgg ttcactgcca acttggatat cgtcgctact
      721 tacatccagg agcccaacga agactgtctc tacctgaacg tctatgtgcc gacggaggat
      781 gtaaagcgga tttccaagga atgcgcccga aagcccaaca agaaaatttg taggaaagga
      841 ggatccggcg ctaagaaaca gggcgaggac ttagcggata atgacgggga tgaagatgaa
      901 gacatccggg acagtggtgc taaacccgtc atggtctaca tccacggagg ctcttacatg
      961 gaagggacag gcaacatgat tgatggcagc atcctcgcca gttatggcaa tgtcatcgtc
     1021 atcaccctca actatcgggt tggagtgcta ggtttcctga gtactggaga tcaggctgcc
     1081 aagggcaact atgggctcct tgaccagatc caggccctcc gctgggtgag cgagaatatt
     1141 gccttcttcg ggggagaccc ccgccggatc actgtctttg gctcgggcat tggtgcatcc
     1201 tgcgtcagcc tcctcacgtt gtcacatcac tcagagggac ttttccagag agccatcatc
     1261 caaagtggct ctgctctgtc cagctgggct gtgaactacc aaccagtgaa gtacaccagc
     1321 ctgctggcag acaaagtggg ctgtaatgtg ctggacaccg tggatatggt ggactgtctt
     1381 cggcaaaaga gtgccaagga gctggtagag caggacatcc agccagcccg ctaccacgtg
     1441 gcctttggcc ctgtgattga tggtgatgtc attcctgatg accctgagat cctcatggag
     1501 cagggcgagt tcctcaacta tgacatcatg ctaggtgtca accagggcga gggtctcaag
     1561 tttgtggaag gggtggtgga ccctgaggat ggtgtctctg gcactgactt tgactattcc
     1621 gtctccaatt ttgtggacaa tctgtatggc tatcctgagg gtaaggacac cctgcgagag
     1681 accatcaagt tcatgtatac agactgggca gaccgtgaca accctgagac ccgccgtaaa
     1741 acactggtgg cactcttcac tgaccaccag tgggtggagc cctcagtggt gacagccgat
     1801 ctgcatgccc gctacggctc gcctacctac ttctacgcct tctatcatca ctgccagagc
     1861 ctcatgaagc ctgcttggtc agatgcagct catggggatg aagtacccta tgtttttggg
     1921 gttcctatgg taggccccac tgaccttttc ccctgcaact tctccaagaa tgatgttatg
     1981 ctcagtgctg tcgtcatgac ctattggacc aactttgcca agactgggga tcccaacaag
     2041 ccggtccccc aggacaccaa gttcattcac accaaggcca accgctttga ggaagtggcc
     2101 tggtccaaat acaatccccg agaccagctc taccttcaca tcgggctgaa accaagggtc
     2161 cgagatcatt accgggccac taaggtggcc ttttggaaac atctggtgcc ccacctatac
     2221 aacctgcatg acatgttcca ctatacgtcc accaccacca aagtgccgcc tccggatacc
     2281 acccacagct cccacatcac ccgcaggccc aatggcaaga cctggagcac caagcggcca
     2341 gccatctcac ctgcctacag caacgagaat gcccaggggt cctggaacgg ggaccaggat
     2401 gcagggccac tcctggtgga gaaccctcgt gactactcca ctgaattaag tgtcaccatc
     2461 gccgtggggg cctccctcct gttccttaac gttctggcct tcgctgccct ctactaccgt
     2521 aaggacaaac ggcgccagga gcccctgcgg cagcctagcc ctcagcgggg agccggggcc
     2581 ccggagttgg gagctgctcc agaggaggag ctggcagcat tacaactggg ccccacccac
     2641 cacgagtgtg aggccggtcc cccccatgac acgctgcgcc tcactgcatt gcccgactac
     2701 accctgaccc tgcggcgctc cccggatgac atcccactca tgacccccaa caccatcact
     2761 atgatcccca actccctggt agggctgcag acattgcacc cctataacac ctttgccgca
     2821 gggttcaaca gtaccgggct gccccactca cactccacta cccgggtata gctccaactc
     2881 agagcacagc caatctccag gctccctccc tcccagatcc aggaacacat gcacacacac
     2941 acacacacac acgcagacac acacacacac acacatatat gtatacgcac gcacccacac
     3001 cctacagcag atccacctgc acaaacatag acagatgtgg acatgcaccc gcatgtacaa
     3061 aaacacaaat acggaagtaa acctgaacaa accctttaaa tggggacgca gatgagtcct
     3121 cggtaaaccg aggacccatg aaacagcagc tgaagccagc tccctgaatc tgaccacaga
     3181 cactcctggg gggcctgaaa gcaacagctg gacaccccct tggtgctcgc cttcggcctc
     3241 tcttggaact gcaccaccga ccaactccag acttgggagc tttaaagagc aggatagctc
     3301 ttcctcccca ggacttggtc ttttttctgg gtcttgtttt gttgattttt cttttttaat
     3361 tttggaacaa atgcttttcc aacccatgag tgctaagagc ctctggaagg gagggcttca
     3421 ggcccgaagg tctctctggc tctaggaccc ccagtgctca cacaatcaga ccaaggaaca
     3481 agacccccag gaaggaaaca gatttaagca agaccatggg gtggaaggag aaaggggcta
     3541 gcactggatg gagctggagg gtcgtagggg agagatctcc aactctctct gtgtccgtgt
     3601 ggagggctgc agagcctgca gggtgacctg cttccccaaa ggccaacagc attggcctgg
     3661 ccagaccagg tgaccttaga tttggtgaac aacgtactat ggaagccaca tcactattgg
     3721 gcccccaggt ctgatctggg ttttgcctct gcccttgggg aaatgctatc agaaattcgc
     3781 cccattttct ttacagtctt ttgtgtctgt catttctctt tcaaaaaggc ggtgtttttt
     3841 gttgttgttg gttttttttt ttttttaaag aaaagttctt aaaacactaa cggaaaccca
     3901 tggagtttgt cctttgtaaa aattttaaac acagtgtctt gatataaaaa taaaaaatcc
     3961 agttagcact cccaa
//
