LOCUS       NM_001258419            2801 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens leucine rich repeat containing 4C (LRRC4C), transcript
            variant 2, mRNA.
ACCESSION   NM_001258419
VERSION     NM_001258419.2
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 2801)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Navarrete-Perea,J., Cannon,J.R.,
            Baltier,K., Gebreab,F., Gygi,M.P., Thornock,A., Zarraga,G., Tam,S.,
            Szpyt,J., Gassaway,B.M., Panov,A., Parzen,H., Fu,S., Golbazi,A.,
            Maenpaa,E., Stricker,K., Guha Thakurta,S., Zhang,T., Rad,R.,
            Pan,J., Nusinow,D.P., Paulo,J.A., Schweppe,D.K., Vaites,L.P.,
            Harper,J.W. and Gygi,S.P.
  TITLE     Dual proteome-scale networks reveal cell-specific remodeling of the
            human interactome
  JOURNAL   Cell 184 (11), 3022-3040 (2021)
   PUBMED   33961781
REFERENCE   2  (bases 1 to 2801)
  AUTHORS   Luck,K., Kim,D.K., Lambourne,L., Spirohn,K., Begg,B.E., Bian,W.,
            Brignall,R., Cafarelli,T., Campos-Laborie,F.J., Charloteaux,B.,
            Choi,D., Cote,A.G., Daley,M., Deimling,S., Desbuleux,A., Dricot,A.,
            Gebbia,M., Hardy,M.F., Kishore,N., Knapp,J.J., Kovacs,I.A.,
            Lemmens,I., Mee,M.W., Mellor,J.C., Pollis,C., Pons,C.,
            Richardson,A.D., Schlabach,S., Teeking,B., Yadav,A., Babor,M.,
            Balcha,D., Basha,O., Bowman-Colin,C., Chin,S.F., Choi,S.G.,
            Colabella,C., Coppin,G., D'Amata,C., De Ridder,D., De Rouck,S.,
            Duran-Frigola,M., Ennajdaoui,H., Goebels,F., Goehring,L., Gopal,A.,
            Haddad,G., Hatchi,E., Helmy,M., Jacob,Y., Kassa,Y., Landini,S.,
            Li,R., van Lieshout,N., MacWilliams,A., Markey,D., Paulson,J.N.,
            Rangarajan,S., Rasla,J., Rayhan,A., Rolland,T., San-Miguel,A.,
            Shen,Y., Sheykhkarimli,D., Sheynkman,G.M., Simonovsky,E., Tasan,M.,
            Tejeda,A., Tropepe,V., Twizere,J.C., Wang,Y., Weatheritt,R.J.,
            Weile,J., Xia,Y., Yang,X., Yeger-Lotem,E., Zhong,Q., Aloy,P.,
            Bader,G.D., De Las Rivas,J., Gaudet,S., Hao,T., Rak,J.,
            Tavernier,J., Hill,D.E., Vidal,M., Roth,F.P. and Calderwood,M.A.
  TITLE     A reference map of the human binary protein interactome
  JOURNAL   Nature 580 (7803), 402-408 (2020)
   PUBMED   32296183
REFERENCE   3  (bases 1 to 2801)
  AUTHORS   Huttlin,E.L., Bruckner,R.J., Paulo,J.A., Cannon,J.R., Ting,L.,
            Baltier,K., Colby,G., Gebreab,F., Gygi,M.P., Parzen,H., Szpyt,J.,
            Tam,S., Zarraga,G., Pontano-Vaites,L., Swarup,S., White,A.E.,
            Schweppe,D.K., Rad,R., Erickson,B.K., Obar,R.A., Guruharsha,K.G.,
            Li,K., Artavanis-Tsakonas,S., Gygi,S.P. and Harper,J.W.
  TITLE     Architecture of the human interactome defines protein communities
            and disease networks
  JOURNAL   Nature 545 (7655), 505-509 (2017)
   PUBMED   28514442
REFERENCE   4  (bases 1 to 2801)
  AUTHORS   Maussion,G., Cruceanu,C., Rosenfeld,J.A., Bell,S.C., Jollant,F.,
            Szatkiewicz,J., Collins,R.L., Hanscom,C., Kolobova,I., de
            Champfleur,N.M., Blumenthal,I., Chiang,C., Ota,V., Hultman,C.,
            O'Dushlaine,C., McCarroll,S., Alda,M., Jacquemont,S., Ordulu,Z.,
            Marshall,C.R., Carter,M.T., Shaffer,L.G., Sklar,P., Girirajan,S.,
            Morton,C.C., Gusella,J.F., Turecki,G., Stavropoulos,D.J.,
            Sullivan,P.F., Scherer,S.W., Talkowski,M.E. and Ernst,C.
  TITLE     Implication of LRRC4C and DPP6 in neurodevelopmental disorders
  JOURNAL   Am J Med Genet A 173 (2), 395-406 (2017)
   PUBMED   27759917
  REMARK    GeneRIF: These data suggest that the proband's autism may be due to
            the inheritance of disruptions in both DPP6 and LRRC4C, and may
            highlight the importance of the netrin G family and potassium
            channel interacting molecules in neurodevelopmental disorders.
REFERENCE   5  (bases 1 to 2801)
  AUTHORS   Deng,X., Sabino,E.C., Cunha-Neto,E., Ribeiro,A.L., Ianni,B.,
            Mady,C., Busch,M.P. and Seielstad,M.
  CONSRTM   REDSII Chagas Study Group from the NHLBI Retrovirus Epidemiology
            Donor Study-II Component International
  TITLE     Genome wide association study (GWAS) of Chagas cardiomyopathy in
            Trypanosoma cruzi seropositive subjects
  JOURNAL   PLoS One 8 (11), e79629 (2013)
   PUBMED   24324551
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 2801)
  AUTHORS   Seiradake,E., Coles,C.H., Perestenko,P.V., Harlos,K.,
            McIlhinney,R.A., Aricescu,A.R. and Jones,E.Y.
  TITLE     Structural basis for cell surface patterning through NetrinG-NGL
            interactions
  JOURNAL   EMBO J 30 (21), 4479-4488 (2011)
   PUBMED   21946559
  REMARK    Publication Status: Online-Only
REFERENCE   7  (bases 1 to 2801)
  AUTHORS   McClay,J.L., Adkins,D.E., Aberg,K., Bukszar,J., Khachane,A.N.,
            Keefe,R.S., Perkins,D.O., McEvoy,J.P., Stroup,T.S., Vann,R.E.,
            Beardsley,P.M., Lieberman,J.A., Sullivan,P.F. and van den Oord,E.J.
  TITLE     Genome-wide pharmacogenomic study of neurocognition as an indicator
            of antipsychotic treatment response in schizophrenia
  JOURNAL   Neuropsychopharmacology 36 (3), 616-626 (2011)
   PUBMED   21107309
REFERENCE   8  (bases 1 to 2801)
  AUTHORS   Hsu,Y.H., Zillikens,M.C., Wilson,S.G., Farber,C.R., Demissie,S.,
            Soranzo,N., Bianchi,E.N., Grundberg,E., Liang,L., Richards,J.B.,
            Estrada,K., Zhou,Y., van Nas,A., Moffatt,M.F., Zhai,G., Hofman,A.,
            van Meurs,J.B., Pols,H.A., Price,R.I., Nilsson,O., Pastinen,T.,
            Cupples,L.A., Lusis,A.J., Schadt,E.E., Ferrari,S.,
            Uitterlinden,A.G., Rivadeneira,F., Spector,T.D., Karasik,D. and
            Kiel,D.P.
  TITLE     An integration of genome-wide association study and gene expression
            profiling to prioritize the discovery of novel susceptibility Loci
            for osteoporosis-related traits
  JOURNAL   PLoS Genet 6 (6), e1000977 (2010)
   PUBMED   20548944
  REMARK    Publication Status: Online-Only
REFERENCE   9  (bases 1 to 2801)
  AUTHORS   Sokolowski,M., Wasserman,J. and Wasserman,D.
  TITLE     Association of polymorphisms in the SLIT2 axonal guidance gene with
            anger in suicide attempters
  JOURNAL   Mol Psychiatry 15 (1), 10-11 (2010)
   PUBMED   20029409
  REMARK    GeneRIF: Observational study of gene-disease association. (HuGE
            Navigator)
REFERENCE   10 (bases 1 to 2801)
  AUTHORS   Lin,J.C., Ho,W.H., Gurney,A. and Rosenthal,A.
  TITLE     The netrin-G1 ligand NGL-1 promotes the outgrowth of
            thalamocortical axons
  JOURNAL   Nat Neurosci 6 (12), 1270-1276 (2003)
   PUBMED   14595443
  REMARK    GeneRIF: NGL-1 is most abundant in the striatum and the cerebral
            cortex--the intermediate and final targets, of thalamocortical
            axons; surface-bound NGL-1 stimulates, but soluble NGL-1 disrupts,
            the growth of embryonic thalamic axons.
            GeneRIF: netrin-G1 functions as an important component of the NGL-1
            receptor to promote TCA outgrowth and that membrane-bound netrins
            can participate in receiving axonal signaling pathways.
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC090138.5, DQ084202.1, DQ084201.1, BX951676.1 and AB046800.1.
            
            On Nov 22, 2018 this sequence version replaced NM_001258419.1.
            
            Summary: NGL1 is a specific binding partner for netrin G1 (NTNG1;
            MIM 608818), which is a member of the netrin family of axon
            guidance molecules (Lin et al., 2003 [PubMed 14595443]).[supplied
            by OMIM, Mar 2008].
            
            Transcript Variant: This variant (2) differs in the 5' UTR compared
            to variant 1. Variants 1 and 2 encode the same protein.
            
            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 :: DQ084201.1, SRR1660807.238108.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000528697.6/ ENSP00000437132.1
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-16                AC090138.5         75972-75987
            17-111              DQ084202.1         138-232
            112-282             DQ084201.1         45-215
            283-283             BX951676.1         472-472
            284-459             DQ084201.1         217-392
            460-505             DQ084202.1         492-537
            506-1016            DQ084201.1         439-949
            1017-2801           AB046800.1         2265-4049
FEATURES             Location/Qualifiers
     source          1..2801
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11p12"
     gene            1..2801
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /note="leucine rich repeat containing 4C"
                     /db_xref="GeneID:57689"
                     /db_xref="HGNC:HGNC:29317"
                     /db_xref="MIM:608817"
     exon            1..222
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /inference="alignment:Splign:2.1.0"
     exon            223..311
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /inference="alignment:Splign:2.1.0"
     exon            312..448
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /inference="alignment:Splign:2.1.0"
     exon            449..542
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /inference="alignment:Splign:2.1.0"
     exon            543..622
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /inference="alignment:Splign:2.1.0"
     exon            623..675
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /inference="alignment:Splign:2.1.0"
     exon            676..2801
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /inference="alignment:Splign:2.1.0"
     CDS             718..2640
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /note="netrin-G1 ligand; leucine-rich repeat-containing
                     protein 4C; netrin-G ligand-1"
                     /codon_start=1
                     /product="leucine-rich repeat-containing protein 4C
                     precursor"
                     /protein_id="NP_001245348.1"
                     /db_xref="CCDS:CCDS31464.1"
                     /db_xref="GeneID:57689"
                     /db_xref="HGNC:HGNC:29317"
                     /db_xref="MIM:608817"
                     /translation="MLNKMTLHPQQIMIGPRFNRALFDPLLVVLLALQLLVVAGLVRA
                     QTCPSVCSCSNQFSKVICVRKNLREVPDGISTNTRLLNLHENQIQIIKVNSFKHLRHL
                     EILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPI
                     ESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPL
                     IKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAH
                     NNLTLLPHDLFTPLHHLERIHLHHNPWNCNCDILWLSWWIKDMAPSNTACCARCNTPP
                     NLKGRYIGELDQNYFTCYAPVIVEPPADLNVTEGMAAELKCRASTSLTSVSWITPNGT
                     VMTHGAYKVRIAVLSDGTLNFTNVTVQDTGMYTCMVSNSVGNTTASATLNVTAATTTP
                     FSYFSTVTVETMEPSQDEARTTDNNVGPTPVVDWETTNVTTSLTPQSTRSTEKTFTIP
                     VTDINSGIPGIDEVMKTTKIIIGCFVAITLMAAVMLVIFYKMRKQHHRQNHHAPTRTV
                     EIINVDDEITGDTPMESHLPMPAIEHEHLNHYNSYKSPFNHTTTVNTINSIHSSVHEP
                     LLIRMNSKDNVQETQI"
     polyA_site      2667
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /note="major polyA site"
     regulatory      2777..2782
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /note="hexamer: ATTAAA"
     polyA_site      2801
                     /gene="LRRC4C"
                     /gene_synonym="NGL-1; NGL1"
                     /note="major polyA site"
ORIGIN      
        1 gcttttgcct ttgatgagtt tttggcttac tttttggcgg agtctcttgg acacgttttt
       61 gctggtgctg gaagatcaga tacatggaac ctttgaaaac tgattatttt tctccgatat
      121 gacttaaaaa aaaataaaaa gaagaaaaga aaatagagta gtgcacggca agctagagga
      181 ttgtaaattt tccttggtga actttgagga tccataaaga agaaatggtt ctctttactg
      241 cgaggctgca aggtcaccca atgagagagg ggccaaataa gctggaacat catctaatac
      301 actgaatgta ggagttactg gaaaagcaag aataacttat gcggattaac aatatggaaa
      361 catcctgaga ctactttgga atcgccataa attaagtggg ttccagtttt gcaaacagag
      421 aaacgggtcc atgaacaatt tgctacaggt ataaagaagt atctgcagaa atccagagca
      481 cttattaaac ttctttgagt tttctcagga agatcaatac ctgttggaga aattttacta
      541 agagcaagaa actgagagtg agaaagaagg gactggccag agttactcag ctagacagtg
      601 acagacaaca gtggaacttc tgattggcaa acgcactgcc tacttacagc atagagaccc
      661 ccagtggaga gctagactgt ttgaattcca gaaggaccaa caccagataa attatgaatg
      721 ttgaacaaga tgaccttaca tccacagcag ataatgatag gtcctaggtt taacagggcc
      781 ctatttgacc ccctgcttgt ggtgctgctg gctcttcaac ttcttgtggt ggctggtctg
      841 gtgcgggctc agacctgccc ttctgtgtgc tcctgcagca accagttcag caaggtgatt
      901 tgtgttcgga aaaacctgcg tgaggttccg gatggcatct ccaccaacac acggctgctg
      961 aacctccatg agaaccaaat ccagatcatc aaagtgaaca gcttcaagca cttgagacac
     1021 ttggaaatcc tacagttgag taggaaccat atcagaacca ttgaaattgg ggctttcaat
     1081 ggtctggcga acctcaacac tctggaactc tttgacaatc gtcttactac catcccgaat
     1141 ggagcttttg tatacttgtc taaactgaag gagctctggt tgcgaaacaa ccccattgaa
     1201 agcatccctt cttatgcttt taacagaatt ccttctttgc gccgactaga cttaggggaa
     1261 ttgaaaagac tttcatacat ctcagaaggt gcctttgaag gtctgtccaa cttgaggtat
     1321 ttgaaccttg ccatgtgcaa ccttcgggaa atccctaacc tcacaccgct cataaaacta
     1381 gatgagctgg atctttctgg gaatcattta tctgccatca ggcctggctc tttccagggt
     1441 ttgatgcacc ttcaaaaact gtggatgata cagtcccaga ttcaagtgat tgaacggaat
     1501 gcctttgaca accttcagtc actagtggag atcaacctgg cacacaataa tctaacatta
     1561 ctgcctcatg acctcttcac tcccttgcat catctagagc ggatacattt acatcacaac
     1621 ccttggaact gtaactgtga catactgtgg ctcagctggt ggataaaaga catggccccc
     1681 tcgaacacag cttgttgtgc ccggtgtaac actcctccca atctaaaggg gaggtacatt
     1741 ggagagctcg accagaatta cttcacatgc tatgctccgg tgattgtgga gccccctgca
     1801 gacctcaatg tcactgaagg catggcagct gagctgaaat gtcgggcctc cacatccctg
     1861 acatctgtat cttggattac tccaaatgga acagtcatga cacatggggc gtacaaagtg
     1921 cggatagctg tgctcagtga tggtacgtta aatttcacaa atgtaactgt gcaagataca
     1981 ggcatgtaca catgtatggt gagtaattcc gttgggaata ctactgcttc agccaccctg
     2041 aatgttactg cagcaaccac tactcctttc tcttactttt caaccgtcac agtagagact
     2101 atggaaccgt ctcaggatga ggcacggacc acagataaca atgtgggtcc cactccagtg
     2161 gtcgactggg agaccaccaa tgtgaccacc tctctcacac cacagagcac aaggtcgaca
     2221 gagaaaacct tcaccatccc agtgactgat ataaacagtg ggatcccagg aattgatgag
     2281 gtcatgaaga ctaccaaaat catcattggg tgttttgtgg ccatcacact catggctgca
     2341 gtgatgctgg tcattttcta caagatgagg aagcagcacc atcggcaaaa ccatcacgcc
     2401 ccaacaagga ctgttgaaat tattaatgtg gatgatgaga ttacgggaga cacacccatg
     2461 gaaagccacc tgcccatgcc tgctatcgag catgagcacc taaatcacta taactcatac
     2521 aaatctccct tcaaccacac aacaacagtt aacacaataa attcaataca cagttcagtg
     2581 catgaaccgt tattgatccg aatgaactct aaagacaatg tacaagagac tcaaatctaa
     2641 aacatttaca gagttacaaa aaacaaacaa tcaaaaaaaa agacagttta ttaaaaatga
     2701 cacaaatgac tgggctaaat ctactgtttc aaaaaagtgt ctttacaaaa aaacaaaaaa
     2761 gaaaagaaat ttatttatta aaaattctat tgtgatctaa a
//
