LOCUS       NM_014186               2949 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens COMM domain containing 9 (COMMD9), transcript variant
            1, mRNA.
ACCESSION   NM_014186
VERSION     NM_014186.4
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 2949)
  AUTHORS   Healy,M.D., McNally,K.E., Butkovic,R., Chilton,M., Kato,K.,
            Sacharz,J., McConville,C., Moody,E.R.R., Shaw,S.,
            Planelles-Herrero,V.J., Yadav,S.K.N., Ross,J., Borucu,U.,
            Palmer,C.S., Chen,K.E., Croll,T.I., Hall,R.J., Caruana,N.J.,
            Ghai,R., Nguyen,T.H.D., Heesom,K.J., Saitoh,S., Berger,I.,
            Schaffitzel,C., Williams,T.A., Stroud,D.A., Derivery,E.,
            Collins,B.M. and Cullen,P.J.
  TITLE     Structure of the endosomal Commander complex linked to
            Ritscher-Schinzel syndrome
  JOURNAL   Cell 186 (10), 2219-2237 (2023)
   PUBMED   37172566
REFERENCE   2  (bases 1 to 2949)
  AUTHORS   Cho,N.H., Cheveralls,K.C., Brunner,A.D., Kim,K., Michaelis,A.C.,
            Raghavan,P., Kobayashi,H., Savy,L., Li,J.Y., Canaj,H., Kim,J.Y.S.,
            Stewart,E.M., Gnann,C., McCarthy,F., Cabrera,J.P., Brunetti,R.M.,
            Chhun,B.B., Dingle,G., Hein,M.Y., Huang,B., Mehta,S.B.,
            Weissman,J.S., Gomez-Sjoberg,R., Itzhak,D.N., Royer,L.A., Mann,M.
            and Leonetti,M.D.
  TITLE     OpenCell: Endogenous tagging for the cartography of human cellular
            organization
  JOURNAL   Science 375 (6585), eabi6983 (2022)
   PUBMED   35271311
REFERENCE   3  (bases 1 to 2949)
  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   4  (bases 1 to 2949)
  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   5  (bases 1 to 2949)
  AUTHORS   McNally,K.E., Faulkner,R., Steinberg,F., Gallon,M., Ghai,R.,
            Pim,D., Langton,P., Pearson,N., Danson,C.M., Nagele,H.,
            Morris,L.L., Singla,A., Overlee,B.L., Heesom,K.J., Sessions,R.,
            Banks,L., Collins,B.M., Berger,I., Billadeau,D.D., Burstein,E. and
            Cullen,P.J.
  TITLE     Retriever is a multiprotein complex for retromer-independent
            endosomal cargo recycling
  JOURNAL   Nat Cell Biol 19 (10), 1214-1225 (2017)
   PUBMED   28892079
REFERENCE   6  (bases 1 to 2949)
  AUTHORS   Hein,M.Y., Hubner,N.C., Poser,I., Cox,J., Nagaraj,N., Toyoda,Y.,
            Gak,I.A., Weisswange,I., Mansfeld,J., Buchholz,F., Hyman,A.A. and
            Mann,M.
  TITLE     A human interactome in three quantitative dimensions organized by
            stoichiometries and abundances
  JOURNAL   Cell 163 (3), 712-723 (2015)
   PUBMED   26496610
REFERENCE   7  (bases 1 to 2949)
  AUTHORS   Phillips-Krawczak,C.A., Singla,A., Starokadomskyy,P., Deng,Z.,
            Osborne,D.G., Li,H., Dick,C.J., Gomez,T.S., Koenecke,M.,
            Zhang,J.S., Dai,H., Sifuentes-Dominguez,L.F., Geng,L.N.,
            Kaufmann,S.H., Hein,M.Y., Wallis,M., McGaughran,J., Gecz,J.,
            Sluis,Bv., Billadeau,D.D. and Burstein,E.
  TITLE     COMMD1 is linked to the WASH complex and regulates endosomal
            trafficking of the copper transporter ATP7A
  JOURNAL   Mol Biol Cell 26 (1), 91-103 (2015)
   PUBMED   25355947
REFERENCE   8  (bases 1 to 2949)
  AUTHORS   Starokadomskyy,P., Gluck,N., Li,H., Chen,B., Wallis,M., Maine,G.N.,
            Mao,X., Zaidi,I.W., Hein,M.Y., McDonald,F.J., Lenzner,S., Zecha,A.,
            Ropers,H.H., Kuss,A.W., McGaughran,J., Gecz,J. and Burstein,E.
  TITLE     CCDC22 deficiency in humans blunts activation of proinflammatory
            NF-kappaB signaling
  JOURNAL   J Clin Invest 123 (5), 2244-2256 (2013)
   PUBMED   23563313
REFERENCE   9  (bases 1 to 2949)
  AUTHORS   Mao,X., Gluck,N., Chen,B., Starokadomskyy,P., Li,H., Maine,G.N. and
            Burstein,E.
  TITLE     COMMD1 (copper metabolism MURR1 domain-containing protein 1)
            regulates Cullin RING ligases by preventing CAND1
            (Cullin-associated Nedd8-dissociated protein 1) binding
  JOURNAL   J Biol Chem 286 (37), 32355-32365 (2011)
   PUBMED   21778237
REFERENCE   10 (bases 1 to 2949)
  AUTHORS   Burstein,E., Hoberg,J.E., Wilkinson,A.S., Rumble,J.M., Csomos,R.A.,
            Komarck,C.M., Maine,G.N., Wilkinson,J.C., Mayo,M.W. and
            Duckett,C.S.
  TITLE     COMMD proteins, a novel family of structural and functional
            homologs of MURR1
  JOURNAL   J Biol Chem 280 (23), 22222-22232 (2005)
   PUBMED   15799966
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC087277.11.
            
            On Nov 23, 2018 this sequence version replaced NM_014186.3.
            
            Transcript Variant: This variant (1) represents the longest
            transcript and encodes the longest isoform (1).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The genomic coordinates used for the
            transcript record were based on transcript alignments.
            
            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 :: SRR1660809.179907.1,
                                           SRR1803611.127114.1 [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1966682 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000263401.10/ ENSP00000263401.5
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-63                AC087277.11        84004-84066         c
            64-189              AC087277.11        75354-75479         c
            190-329             AC087277.11        73119-73258         c
            330-364             AC087277.11        71731-71765         c
            365-468             AC087277.11        70779-70882         c
            469-2949            AC087277.11        66934-69414         c
FEATURES             Location/Qualifiers
     source          1..2949
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="11"
                     /map="11p13"
     gene            1..2949
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /note="COMM domain containing 9"
                     /db_xref="GeneID:29099"
                     /db_xref="HGNC:HGNC:25014"
                     /db_xref="MIM:612299"
     exon            1..63
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /inference="alignment:Splign:2.1.0"
     CDS             13..609
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /note="isoform 1 is encoded by transcript variant 1; COMM
                     domain-containing protein 9"
                     /codon_start=1
                     /product="COMM domain-containing protein 9 isoform 1"
                     /protein_id="NP_054905.2"
                     /db_xref="CCDS:CCDS7900.1"
                     /db_xref="GeneID:29099"
                     /db_xref="HGNC:HGNC:25014"
                     /db_xref="MIM:612299"
                     /translation="MAALTAEHFAALQSLLKASSKDVVRQLCQESFSSSALGLKKLLD
                     VTCSSLSVTQEEAEELLQALHRLTRLVAFRDLSSAEAILALFPENFHQNLKNLLTKII
                     LEHVSTWRTEAQANQISLPRLVDLDWRVDIKTSSDSISRMAVPTCLLQMKIQEDPSLC
                     GDKPSISAVTVELSKETLDTMLDGLGRIRDQLSAVASK"
     exon            64..189
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /inference="alignment:Splign:2.1.0"
     exon            190..329
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /inference="alignment:Splign:2.1.0"
     exon            330..364
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /inference="alignment:Splign:2.1.0"
     exon            365..468
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /inference="alignment:Splign:2.1.0"
     exon            469..2949
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1258..1263
                     /regulatory_class="polyA_signal_sequence"
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /note="hexamer: ACTAAA"
     polyA_site      1281
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /note="major polyA site"
     regulatory      2928..2933
                     /regulatory_class="polyA_signal_sequence"
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
                     /note="hexamer: AATAAA"
     polyA_site      2949
                     /gene="COMMD9"
                     /gene_synonym="C11orf55; HSPC166; LINC00610"
ORIGIN      
        1 gacttcggca agatggctgc cctgacagcg gagcattttg cagcactcca gagcctgctc
       61 aaggcctcct cgaaagatgt tgtcagacag ctgtgtcaag aaagcttttc cagttcagcc
      121 cttggcttga aaaaactctt ggatgttaca tgttccagct tgtctgtgac ccaggaggag
      181 gcagaggaac tgctccaggc tctgcaccgc ctcactaggc tggtggcatt ccgtgacctg
      241 tcctctgccg aggcaattct ggctctcttt ccagaaaatt tccaccaaaa cctcaaaaac
      301 ctgctgacaa agatcatcct agaacatgtg tctacttgga gaaccgaagc ccaggcaaat
      361 cagatctctc tgccacgcct ggtcgatctg gactggagag tggatatcaa aacctcctca
      421 gacagcatca gccgcatggc cgtccccacc tgcctgctcc agatgaagat ccaagaagat
      481 cccagcctat gcggagacaa accctccatc tcagctgtca ccgtggagct gagcaaagaa
      541 acactggaca ccatgttaga tggcctgggc cgcatccgag accaactctc tgccgtggcc
      601 agtaaatgat ccagccagct gccagggcca ctgccatgac ccagctgctc atgagtgata
      661 aatgtctccc catatgcagg ctgcccttgc agctgcagct gacaacaggc aggatggtgg
      721 ggacagcagg gggctactgc catccagaag ttacagttgg attgggaaga agcagccaga
      781 tcccccgctg ttctcactca tcttctttct ctttctgaag ctggagagca gaagccccca
      841 tctttgaaaa gctcctgagt gcaacttaat taccaccatg gcagggtgag ggaacatttg
      901 catcgtcagc tgcctctgca tagctgtttg agaaattcag gcccaaatca tgcagcctat
      961 ccaataagta agtttatttc caacattagc tctaattagt tcatttccaa tcccagaaca
     1021 catggaggga atcggacagg tgatgccagc agttcctgct cctctgtcag ggaagccagg
     1081 cagagcccac agagcatggt ccatccagag tgttccctga gccccctcca ccatactgga
     1141 acccctcttc agtgtaggaa gtctgaaatg ggtgctaatt cccttcttca tgaaaccagg
     1201 gccctcttcc ttcatctaat gcagccactc ctaggtgaag aagtgggaat aattggaact
     1261 aaacaacagt tctaaaactt ccatgatttt tgtagcttct tttgtcccca agttgaagct
     1321 tttggccagt accttctcta gtttttaaag atgatcccaa cttcctaatt cccagctaag
     1381 cccttgaccc atggtgtgac atgaaatcag gcaattgaat cgcaccactt tctgtgtttt
     1441 cacctgttac gtagaacaaa aggaagcaag gtggccaggc gcaatggctc acgcctgtaa
     1501 tcccagcact ttgggaggcc gaggcaggca gatcatgagg tcaggagatc gagaccatgg
     1561 tgaaacccca tctctactaa aaatacaaaa aattagctgg gcgcggtggc gggcatctgt
     1621 agtcccagct cctcgggagg ctgaggcagg agaatggcgt gaacctggga ggcagagctt
     1681 gcagtgagcc gagatcgtgc cactgcactc cagtctgggt gacagagaag gactcgtctc
     1741 aaaaaataaa aataaataaa aaggaagcaa ggctaatcat cagtatgtgc ttgttacaag
     1801 agctatgatg aaggcactcc ttcgagttta accaaatgag atcatctctg tcatgtgcct
     1861 cacgcctcac agggactcca tgtgtgaaga ttcccccttc actcaccaga tcatctccat
     1921 ggcaacagct tgcagcctgc tcttggagtg ctttgttttg gcagcttctc tgctagtttg
     1981 tgtatggagt gaatggagga ggtaaatcca cagattaaga atatgctgtc aggagtcagg
     2041 cagccaaggt cagaagccag ctctgcttct cagtggtaag gtgcttgact tctacatctc
     2101 aattttcacc cactttgtac ttttttccta aattaaatga gtataatagt agtacctact
     2161 tgataggact tttgtgaaaa ttaaatgata taatgcacct aaaaacagta ctgttacaac
     2221 taataggaaa ggctttgatt attaatggat gagagtagaa agcttggtgc atttattgtc
     2281 tcatctacta taacagagtt ggtgtgagaa ttagtattat catcctccct ttattgacca
     2341 ggaaaccagc tcattgagat tgagtcatct gctggtaaat ggtctcatta agaggtggac
     2401 ccatatttct ctagctttct ctttacaaca caggactttg caaggaacat ataattctgt
     2461 gactagcgcc atttggaaaa tgttgaaact gaagtagaga tgagagatct tacgtctgcc
     2521 tacccagtga gatacgagga aggtcaaggg aaaaaaaatt ccaagctctt ctttatctgc
     2581 tataggaaat gaacattcaa ttttttgcat gcaacgacaa gaggtcaagg accccagaag
     2641 ccagcccgct acttccaagt tgagagcccc tggtcatacc ctccagttga gctcagattt
     2701 gtcacaaatt tacccctctc ctttccttcc attccccatg acctgcagag agagatgtca
     2761 gataccttcc tcttggcctc ccatgggcat ccataagaaa cttacttgaa gcaagaagcc
     2821 cagtataggt gtctgggcag ttggacattt cctctagcca gatctgtccg aatagagcca
     2881 tctgggtaca tgacgcagag ggcatttgat aaataactgg aaaagtcaat aaatctttgc
     2941 tacccttca
//
