LOCUS       NM_012322               2214 bp    mRNA    linear   PRI 19-SEP-2024
DEFINITION  Homo sapiens LSM5 homolog, U6 small nuclear RNA and mRNA
            degradation associated (LSM5), transcript variant 1, mRNA.
ACCESSION   NM_012322
VERSION     NM_012322.3
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 2214)
  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 2214)
  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 2214)
  AUTHORS   Fragoza,R., Das,J., Wierbowski,S.D., Liang,J., Tran,T.N., Liang,S.,
            Beltran,J.F., Rivera-Erick,C.A., Ye,K., Wang,T.Y., Yao,L., Mort,M.,
            Stenson,P.D., Cooper,D.N., Wei,X., Keinan,A., Schimenti,J.C.,
            Clark,A.G. and Yu,H.
  TITLE     Extensive disruption of protein interactions by genetic variants
            across the allele frequency spectrum in human populations
  JOURNAL   Nat Commun 10 (1), 4141 (2019)
   PUBMED   31515488
  REMARK    Publication Status: Online-Only
REFERENCE   4  (bases 1 to 2214)
  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 2214)
  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 2214)
  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   7  (bases 1 to 2214)
  AUTHORS   Suzuki,H., Fukunishi,Y., Kagawa,I., Saito,R., Oda,H., Endo,T.,
            Kondo,S., Bono,H., Okazaki,Y. and Hayashizaki,Y.
  TITLE     Protein-protein interaction panel using mouse full-length cDNAs
  JOURNAL   Genome Res 11 (10), 1758-1765 (2001)
   PUBMED   11591653
REFERENCE   8  (bases 1 to 2214)
  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 2214)
  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 2214)
  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
            BF667238.1, BC040717.1, AF182291.1, AC018641.3, BM786181.1 and
            CX782029.1.
            
            On Nov 22, 2018 this sequence version replaced NM_012322.2.
            
            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].
            
            Transcript Variant: This variant encodes the longer isoform (a).
            
            Sequence Note: This RefSeq record was created from transcript and
            genomic sequence data to make the sequence consistent with the
            reference genome assembly. The extent of this transcript is
            supported by 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 :: AK024217.1, SRR7346977.756747.1
                                           [ECO:0000332]
            RNAseq introns              :: mixed sample support SAMEA1965299,
                                           SAMEA1968540 [ECO:0006172]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            MANE Ensembl match     :: ENST00000450169.7/ ENSP00000410758.2
            RefSeq Select criteria :: based on conservation, expression,
                                      longest protein
            ##RefSeq-Attributes-END##
            COMPLETENESS: full length.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-13                BF667238.1         33-45
            14-61               BC040717.1         497-544
            62-731              AF182291.1         54-723
            732-1381            AC018641.3         56330-56979
            1382-1597           BM786181.1         406-621
            1598-1704           AC018641.3         57196-57302
            1705-2214           CX782029.1         31-540              c
FEATURES             Location/Qualifiers
     source          1..2214
                     /organism="Homo sapiens"
                     /mol_type="mRNA"
                     /db_xref="taxon:9606"
                     /chromosome="7"
                     /map="7p14.3"
     gene            1..2214
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /note="LSM5 homolog, U6 small nuclear RNA and mRNA
                     degradation associated"
                     /db_xref="GeneID:23658"
                     /db_xref="HGNC:HGNC:17162"
                     /db_xref="MIM:607285"
     exon            1..61
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /inference="alignment:Splign:2.1.0"
     CDS             16..291
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /note="isoform a is encoded by transcript variant 1; U6
                     snRNA-associated Sm-like protein LSm5; LSM5 homolog, U6
                     small nuclear RNA associated; LSM5 U6 small nuclear RNA
                     and mRNA degradation associated"
                     /codon_start=1
                     /product="U6 snRNA-associated Sm-like protein LSm5 isoform
                     a"
                     /protein_id="NP_036454.1"
                     /db_xref="CCDS:CCDS5438.1"
                     /db_xref="GeneID:23658"
                     /db_xref="HGNC:HGNC:17162"
                     /db_xref="MIM:607285"
                     /translation="MAANATTNPSQLLPLELVDKCIGSRIHIVMKSDKEIVGTLLGFD
                     DFVNMVLEDVTEFEITPEGRRITKLDQILLNGNNITMLVPGGEGPEV"
     exon            62..157
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /inference="alignment:Splign:2.1.0"
     exon            158..185
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /inference="alignment:Splign:2.1.0"
     exon            186..258
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /inference="alignment:Splign:2.1.0"
     exon            259..2214
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /inference="alignment:Splign:2.1.0"
     regulatory      497..502
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /note="hexamer: AATAAA"
     polyA_site      517
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /note="major polyA site"
     regulatory      725..730
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /note="hexamer: ATTAAA"
     polyA_site      747
                     /gene="LSM5"
                     /gene_synonym="YER146W"
     regulatory      1306..1311
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /note="hexamer: ATTAAA"
     polyA_site      1326
                     /gene="LSM5"
                     /gene_synonym="YER146W"
     regulatory      2195..2200
                     /regulatory_class="polyA_signal_sequence"
                     /gene="LSM5"
                     /gene_synonym="YER146W"
                     /note="hexamer: ATTATA"
     polyA_site      2214
                     /gene="LSM5"
                     /gene_synonym="YER146W"
ORIGIN      
        1 acttccggcg tagccatggc ggctaacgct actaccaacc cgtcgcagct gctgccctta
       61 gagcttgtgg acaaatgtat aggatcaaga attcacatcg tgatgaagag tgataaggaa
      121 attgttggta ctcttctagg atttgatgac tttgtcaata tggtactgga agatgtcact
      181 gagtttgaaa tcacaccaga aggaagaagg attactaaat tagatcagat tttgctaaat
      241 ggaaataata taacaatgct ggttcctgga ggagaaggac ctgaagtgtg aatgagtttc
      301 cttgacttac actagatttt gttttggctt ataatgacaa gaaaatggaa ttttttttcc
      361 cactttctaa tgtttaaatc ccataaagct aagtttcccg ttaaagggaa gtgctttgaa
      421 gatgtgtacc catttttgta agttaatcat gattatcctg gaaaaagaag aaaagagctt
      481 cttctttgca gatgaaaata aaggtgtttt tggttaactg tcattttgtt tattctactg
      541 cagtagccag tggaacaaag tttgtagtta ttttgccact tacttttctg tcattatatg
      601 cttatttgtt ttgtcattta cgtgaccatt tgattctcaa acaaaagttg ttccaaacaa
      661 aatgatgaac tttgatttga acaggtgcat ttaaacaacc ggaaatgatc acttagaaaa
      721 ttcaattaaa atgctgttgt tttgtaatga ggatttttct tctgatttca aattccatga
      781 actcctattg aaaacaaaca atgtacaggt aatatatgca cattgtagaa atgcaggaat
      841 tatctattgg aattacccta aagatagaaa ttttatctat ttgcttataa aattgattca
      901 gaaggttatt accttaatgt agttattact gaattgccag gaaatgagtg gagacagagc
      961 tttaagataa aggatactaa aagcagctaa gaactccagg actcaggtca aatcaaggaa
     1021 ctgataataa gatcattgaa ctgtataaat taagtcaaag aactcctatt aaaaacaaac
     1081 aggtaatata tgcacatcgt agaattgtag gtaagcaaaa aggagaaggt tgatcatgct
     1141 ttgctgtatg tcttcgtaga ctttctcagt ccactctcag tacacgtttt attttacttg
     1201 ctcatcctga ttatactgtt tttaccctcc acttaagtca ttttttgaat ttaaatggtg
     1261 aatatctttc tgtgtcaaat atttcaacat taatatgtac atagtattaa atggatttac
     1321 tataaattat ttagcctatt cttactggcc acagtagtct aactagatct ttatacattt
     1381 gtatttttct agaataaact caaaaatgtg taagatcaaa gggtatatat tgtgttgcca
     1441 agaaaaagtt tgtgccaatg tatatttttg ccaggagtct ttcatagtac catttatatc
     1501 cttcccagca ttagctgtgt tctaccttct ctcctctttg ccatttttac aagaaaaccg
     1561 ggcatgtcta aagttttctt ttcctttttt tttttttttt tttttttttg gagagtctca
     1621 ctggaatgca gtggcatgat cttggctccc tgcaacctcc agtcaggctg gtgtgccttg
     1681 tcgcgatatc aacgcgacct ccgcctccca ggttcaagtg attgtcctgc ctcaccctcc
     1741 tgagtagctg ggattacagg tgggcgccac cactcccatc taatttttat atttttagag
     1801 agatggggtt ttaccttgtt ggccaggctg gtcttgaact cctgacctct agtgatccac
     1861 ctgcctcagc ctcccaaagt gccggtatta aaggcatgag ccaccaggcc tggcctaaaa
     1921 ttttcttgat taattttgat ctcatttgta ttttgtaaat gacttatctg ttgaggcttt
     1981 tgccattgag atgtttgtct ttttcttact aatttgtaag aattcttgat gggtttctgt
     2041 tagtcatgta ttttgctaat aatttcccta gtttgtagtt tgccacttag tgctattttt
     2101 gacataaatg atgtatttta atgtagttgc atgttgacct agtccattat ggtttttgta
     2161 tttggtccac gtggattgga aaacctttgc tttgattata cttttctttg ggca
//
