LOCUS       NM_007080               2226 bp    mRNA    linear   PRI 20-SEP-2024
DEFINITION  Homo sapiens LSM6 homolog, U6 small nuclear RNA and mRNA
            degradation associated (LSM6), mRNA.
ACCESSION   NM_007080 XM_001127900 XM_001131191
VERSION     NM_007080.3
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 2226)
  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   2  (bases 1 to 2226)
  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   3  (bases 1 to 2226)
  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   4  (bases 1 to 2226)
  AUTHORS   Charenton,C., Wilkinson,M.E. and Nagai,K.
  TITLE     Mechanism of 5' splice site transfer for human spliceosome
            activation
  JOURNAL   Science 364 (6438), 362-367 (2019)
   PUBMED   30975767
REFERENCE   5  (bases 1 to 2226)
  AUTHORS   Bertram,K., Agafonov,D.E., Dybkov,O., Haselbach,D., Leelaram,M.N.,
            Will,C.L., Urlaub,H., Kastner,B., Luhrmann,R. and Stark,H.
  TITLE     Cryo-EM Structure of a Pre-catalytic Human Spliceosome Primed for
            Activation
  JOURNAL   Cell 170 (4), 701-713 (2017)
   PUBMED   28781166
REFERENCE   6  (bases 1 to 2226)
  AUTHORS   Ingelfinger,D., Arndt-Jovin,D.J., Luhrmann,R. and Achsel,T.
  TITLE     The human LSm1-7 proteins colocalize with the mRNA-degrading
            enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci
  JOURNAL   RNA 8 (12), 1489-1501 (2002)
   PUBMED   12515382
  REMARK    GeneRIF: LSm1-7 proteins colocalize with DCP1,DCP2 and Xrn1 in
            cytoplasmic foci
REFERENCE   7  (bases 1 to 2226)
  AUTHORS   Eystathioy,T., Peebles,C.L., Hamel,J.C., Vaughn,J.H. and Chan,E.K.
  TITLE     Autoantibody to hLSm4 and the heptameric LSm complex in anti-Sm
            sera
  JOURNAL   Arthritis Rheum 46 (3), 726-734 (2002)
   PUBMED   11920408
REFERENCE   8  (bases 1 to 2226)
  AUTHORS   Friesen,W.J. and Dreyfuss,G.
  TITLE     Specific sequences of the Sm and Sm-like (Lsm) proteins mediate
            their interaction with the spinal muscular atrophy disease gene
            product (SMN)
  JOURNAL   J Biol Chem 275 (34), 26370-26375 (2000)
   PUBMED   10851237
REFERENCE   9  (bases 1 to 2226)
  AUTHORS   Achsel,T., Brahms,H., Kastner,B., Bachi,A., Wilm,M. and Luhrmann,R.
  TITLE     A doughnut-shaped heteromer of human Sm-like proteins binds to the
            3'-end of U6 snRNA, thereby facilitating U4/U6 duplex formation in
            vitro
  JOURNAL   EMBO J 18 (20), 5789-5802 (1999)
   PUBMED   10523320
REFERENCE   10 (bases 1 to 2226)
  AUTHORS   Salgado-Garrido,J., Bragado-Nilsson,E., Kandels-Lewis,S. and
            Seraphin,B.
  TITLE     Sm and Sm-like proteins assemble in two related complexes of deep
            evolutionary origin
  JOURNAL   EMBO J 18 (12), 3451-3462 (1999)
   PUBMED   10369684
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            DB465201.1, BC016026.1, AI351504.1 and AC097372.3.
            
            On Nov 23, 2018 this sequence version replaced NM_007080.2.
            
            Summary: Sm-like proteins were identified in a variety of organisms
            based on sequence homology with the Sm protein family (see SNRPD2;
            MIM 601061). Sm-like proteins contain the Sm sequence motif, which
            consists of 2 regions separated by a linker of variable length that
            folds as a loop. The Sm-like proteins are thought to form a stable
            heteromer present in tri-snRNP particles, which are important for
            pre-mRNA splicing.[supplied by OMIM, Apr 2004].
            
            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 :: SRR1803612.57963.1,
                                           SRR1660803.47897.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA1965299, SAMEA1966682
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000296581.11/ ENSP00000296581.5
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-11                DB465201.1         36-46
            12-602              BC016026.1         1-591
            603-752             AI351504.1         3-152               c
            753-2226            AC097372.3         99363-100836
FEATURES             Location/Qualifiers
     source          1..2226
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="4"
                     /map="4q31.22"
     gene            1..2226
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="LSM6 homolog, U6 small nuclear RNA and mRNA
                     degradation associated"
                     /db_xref="GeneID:11157"
                     /db_xref="HGNC:HGNC:17017"
                     /db_xref="MIM:607286"
     exon            1..94
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /inference="alignment:Splign:2.1.0"
     exon            95..198
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /inference="alignment:Splign:2.1.0"
     CDS             105..347
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="Sm protein F; LSM6 homolog, U6 small nuclear RNA
                     associated; LSM6 U6 small nuclear RNA and mRNA degradation
                     associated"
                     /codon_start=1
                     /product="U6 snRNA-associated Sm-like protein LSm6"
                     /protein_id="NP_009011.1"
                     /db_xref="CCDS:CCDS3767.1"
                     /db_xref="GeneID:11157"
                     /db_xref="HGNC:HGNC:17017"
                     /db_xref="MIM:607286"
                     /translation="MSLRKQTPSDFLKQIIGRPVVVKLNSGVDYRGVLACLDGYMNIA
                     LEQTEEYVNGQLKNKYGDAFIRGNNVLYISTQKRRM"
     exon            199..312
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /inference="alignment:Splign:2.1.0"
     exon            313..2226
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /inference="alignment:Splign:2.1.0"
     regulatory      599..604
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="hexamer: AATATA"
     polyA_site      632
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="major polyA site"
     regulatory      718..723
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="hexamer: ATTAAA"
     polyA_site      737
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="major polyA site"
     regulatory      1768..1773
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="hexamer: AATAAA"
     polyA_site      1794
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
     regulatory      2200..2205
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
                     /note="hexamer: AATAAA"
     polyA_site      2226
                     /gene="LSM6"
                     /gene_synonym="YDR378C"
ORIGIN      
        1 ccctgcctcg gcgctttcgg ttttggctgg gatcatccgc ggcggccggg ctcgtggggc
       61 gcctggagtg agggttctgg ttcccgccgg cgaggattgt taaaatgagt cttcggaagc
      121 aaacccctag tgacttctta aagcaaatca tcggacgacc agttgtggta aaattaaatt
      181 ctggagtgga ttatcgaggg gtcctggctt gcctggatgg ctacatgaat atagccctgg
      241 agcagacaga agaatatgta aatggacaac tgaagaataa gtatggggat gcatttatcc
      301 gaggaaacaa tgtgttgtac atcagtacac agaagagacg gatgtgaaga caccaagaga
      361 gcaacgcttt tcatagttgg atatattttt ttatgaattt tttctaattt ttgcttcttt
      421 tgtgatacaa tttgtcctct ttttataata gttggtgatt tttcactgac atgtgagtaa
      481 gataaatgta tacaattgtg gatttaattg tgaaatgttc tttcacttgt aagtttcagt
      541 cattttcttt tacctcgttg tcagtgtaca gaatgctaaa ataattaaaa aaagacaaaa
      601 tatacctctt cctacaagat tatttaactt aagtttcgag aagtgtcatt tcatttgact
      661 tgcttttctt atccagctaa aatgatgcat atattttata tattgtatgg acatataatt
      721 aaaacatttt ggaggaatcc tcctttattg catccttttc tgttcataca gaatccttgc
      781 gtgaatatgt tctacaaagg catccagttt cagtctgaag ctacaaaaag gggccacagg
      841 atcagaagtt cagccactga ttgagtcacc taaataaaaa acagaattgg aaagccaaga
      901 gtgccacttg cacataagga gtgggaattc gaactgaggt gctggagaaa tcctaaagat
      961 gaacaagatt tcagtgagga gaaagccctc ctgtcagtgg tccccctgca tctccttatg
     1021 caattagact ttttaggttt ccctgctccc tttcaggagc attggcatca acgttattct
     1081 ctcagtttat gaacacagta ggggaggggc cattcctgta catctctcac agtcagatta
     1141 aagcaaagcc tagagtttgt aaacataatt caggttctaa ttgccgagct gagattggga
     1201 aagaattttt cctaactctg gtctagcaag tggctgtagg gaggcctttc tcaaaaatca
     1261 gctgtatttg cctttgacat tgtccaggag cagagcacca ggctttatgt tgcttggcac
     1321 aaggcagctc ctctggttat gtgactcctg ctgagaggat tttcacaatt tattaatgag
     1381 ctttccacaa ccctgcttta ttctccaaac agttttacgc tgtctctagg aacaacaaat
     1441 atatctgggc actgtggttg aatgaatacc agacaattgt gtgaatgttg tattggactt
     1501 cctcttccct cccttcccaa tctaaatagc attcctattt caggagccga tggtgtgatt
     1561 cgaaacaact gcttggttga aggatggggg gcaggatcga gaaggagaga gggaaggggc
     1621 agtgctgatt ctggagaggt gtatgtagtg ttttgtcttg gtttatttta aagatcagag
     1681 agtaattgga aacaattatt ttttaattaa taacttggga aaggtgaaca gaagcatttc
     1741 acagggtttt accgtgtgca cactgaaaat aaaacacttt atgctatgct tcaataattt
     1801 atcacttctt gacaggggct tggaaaaggt ccagtatgta agtacaaatc accaatttgc
     1861 tcttttataa atgagttctt ttaaggagaa aatggatggc tctccaagtg gagcatacat
     1921 gttctcattt gttttgtaga atatgtgggg ctgcaggtta ttgtgtccct tcattcactt
     1981 atatcagcca cctctaaaag caattccatt gtagtctccc actaatctgt agcgtcctgt
     2041 tttttctaac ttcttccctg acctcgcctt tgatatataa gtctttattt tccccttgcc
     2101 atctctctag tttaatagct ctacagtgga gtactgtttt caaccatgga actactttta
     2161 atcaagatca actttgggaa gtgctgccat ttttatggta ataaaggact gtattatgca
     2221 cttgaa
//
