LOCUS       NM_001110101             890 bp    mRNA    linear   ROD 30-APR-2024
DEFINITION  Mus musculus LSM2 homolog, U6 small nuclear RNA and mRNA
            degradation associated (Lsm2), transcript variant 2, mRNA.
ACCESSION   NM_001110101
VERSION     NM_001110101.2
KEYWORDS    RefSeq; RefSeq Select.
SOURCE      Mus musculus (house mouse)
  ORGANISM  Mus musculus
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha;
            Muroidea; Muridae; Murinae; Mus; Mus.
REFERENCE   1  (bases 1 to 890)
  AUTHORS   Adams,D.J., Barlas,B., McIntyre,R.E., Salguero,I., van der
            Weyden,L., Barros,A., Vicente,J.R., Karimpour,N., Haider,A.,
            Ranzani,M., Turner,G., Thompson,N.A., Harle,V., Olvera-Leon,R.,
            Robles-Espinoza,C.D., Speak,A.O., Geisler,N., Weninger,W.J.,
            Geyer,S.H., Hewinson,J., Karp,N.A., Fu,B., Yang,F., Kozik,Z.,
            Choudhary,J., Yu,L., van Ruiten,M.S., Rowland,B.D., Lelliott,C.J.,
            Del Castillo Velasco-Herrera,M., Verstraten,R., Bruckner,L.,
            Henssen,A.G., Rooimans,M.A., de Lange,J., Mohun,T.J., Arends,M.J.,
            Kentistou,K.A., Coelho,P.A., Zhao,Y., Zecchini,H., Perry,J.R.B.,
            Jackson,S.P. and Balmus,G.
  CONSRTM   Sanger Mouse Genetics Project
  TITLE     Genetic determinants of micronucleus formation in vivo
  JOURNAL   Nature 627 (8002), 130-136 (2024)
   PUBMED   38355793
REFERENCE   2  (bases 1 to 890)
  AUTHORS   van Kooij,M., de Groot,K., van Vugt,H., Aten,J. and Snoek,M.
  TITLE     Genotype versus phenotype: conflicting results in mapping a lung
            tumor susceptibility locus to the G7c recombination interval in the
            mouse MHC class III region
  JOURNAL   Immunogenetics 53 (8), 656-661 (2001)
   PUBMED   11797099
REFERENCE   3  (bases 1 to 890)
  AUTHORS   Allcock,R.J., Martin,A.M. and Price,P.
  TITLE     The mouse as a model for the effects of MHC genes on human disease
  JOURNAL   Immunol Today 21 (7), 328-332 (2000)
   PUBMED   10871872
  REMARK    Review article
REFERENCE   4  (bases 1 to 890)
  AUTHORS   Snoek,M. and van Vugt,H.
  TITLE     The sequence and organization of the mouse valyl-tRNA synthetase
            gene G7a/Bat6 located in the MHC class III region
  JOURNAL   Immunogenetics 49 (5), 468-470 (1999)
   PUBMED   10199925
REFERENCE   5  (bases 1 to 890)
  AUTHORS   Snoek,M., Teuscher,C. and van Vugt,H.
  TITLE     Molecular analysis of the major MHC recombinational hot spot
            located within the G7c gene of the murine class III region that is
            involved in disease susceptibility
  JOURNAL   J Immunol 160 (1), 266-272 (1998)
   PUBMED   9551980
REFERENCE   6  (bases 1 to 890)
  AUTHORS   Fijneman,R.J., Oomen,L.C., Snoek,M. and Demant,P.
  TITLE     A susceptibility gene for alveolar lung tumors in the mouse maps
            between Hsp70.3 and G7 within the H2 complex
  JOURNAL   Immunogenetics 41 (2-3), 106-109 (1995)
   PUBMED   7806281
REFERENCE   7  (bases 1 to 890)
  AUTHORS   Snoek,M., van Vugt,H. and Groot,P.C.
  TITLE     New microsatellite size variants as markers for a cross-over
            hotspot in the C4-H-2D region
  JOURNAL   Mamm Genome 5 (3), 174-176 (1994)
   PUBMED   8199408
REFERENCE   8  (bases 1 to 890)
  AUTHORS   Snoek,M., Olavesen,M.G., van Vugt,H., Milner,C.M., Teuscher,C. and
            Campbell,R.D.
  TITLE     Coding sequences and levels of expression of Hsc70t are identical
            in mice with different Orch-1 alleles
  JOURNAL   Immunogenetics 40 (2), 159-162 (1994)
   PUBMED   8026864
REFERENCE   9  (bases 1 to 890)
  AUTHORS   Gasser,D.L., Sternberg,N.L., Pierce,J.C., Goldner-Sauve,A.,
            Feng,H., Haq,A.K., Spies,T., Hunt,C., Buetow,K.H. and Chaplin,D.D.
  TITLE     P1 and cosmid clones define the organization of 280 kb of the mouse
            H-2 complex containing the Cps-1 and Hsp70 loci
  JOURNAL   Immunogenetics 39 (1), 48-55 (1994)
   PUBMED   7993390
REFERENCE   10 (bases 1 to 890)
  AUTHORS   Olavesen,M.G., Snoek,M. and Campbell,R.D.
  TITLE     Localization of a new gene adjacent to the HSP70 genes in human and
            mouse MHCs
  JOURNAL   Immunogenetics 37 (5), 394-396 (1993)
   PUBMED   8428774
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC087117.9, AK151605.1 and AF204150.1.
            
            On Feb 24, 2011 this sequence version replaced NM_001110101.1.
            
            Transcript Variant: This variant (2) differs in the 5' UTR, lacks
            an exon in the 5' coding region and uses an upstream in-frame start
            codon, compared to variant 1. The encoded isoform (2) has a shorter
            N-terminus, compare to variant 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 :: BC014288.1, BI407197.1 [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMN00849374, SAMN00849375
                                           [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria :: based on conservation, expression
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-27                AC087117.9         90471-90497
            28-638              AK151605.1         2-612
            639-890             AF204150.1         616-867
FEATURES             Location/Qualifiers
     source          1..890
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="17"
                     /map="17 18.52 cM"
     gene            1..890
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /note="LSM2 homolog, U6 small nuclear RNA and mRNA
                     degradation associated"
                     /db_xref="GeneID:27756"
                     /db_xref="MGI:MGI:90676"
     exon            1..232
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /inference="alignment:Splign:2.1.0"
     CDS             230..517
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /note="isoform 2 is encoded by transcript variant 2;
                     dystrophia myotonica-protein kinase associated protein;
                     snRNP core protein SMX5; U6 snRNA-associated Sm-like
                     protein LSm2; LSM2 homolog, U6 small nuclear RNA
                     associated; small ribonuclear protein G7b; G7b alternative
                     form; snRNP core Sm-like protein Sm-x5"
                     /codon_start=1
                     /product="U6 snRNA-associated Sm-like protein LSm2 isoform
                     2"
                     /protein_id="NP_001103571.1"
                     /db_xref="CCDS:CCDS50081.1"
                     /db_xref="GeneID:27756"
                     /db_xref="MGI:MGI:90676"
                     /translation="MLFYSFFKSLVGKDVVVELKNDLSICGTLHSVDQYLNIKLTDIS
                     VTDPEKYPHMLSVKNCFIRGSVVRYVQLPADEVDTQLLQDAARKEALQQKQ"
     exon            233..300
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /inference="alignment:Splign:2.1.0"
     exon            301..331
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /inference="alignment:Splign:2.1.0"
     exon            332..391
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /inference="alignment:Splign:2.1.0"
     exon            392..866
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      842..847
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /note="hexamer: AATAAA"
     polyA_site      866
                     /gene="Lsm2"
                     /gene_synonym="D17H6S56E-2; D17H6S56E2; Dmapl; Dmpkap;
                     G7b; Sm-X5; SmX5; snRNP"
                     /note="major polyA site"
ORIGIN      
        1 ggggacagga agttccgccc ctctaccggt ttggcggtcc tctcggctct gccctacccc
       61 gctccctttg agcctgaatt cagccgaggt tttcgcggct ccccgtgcgc ctgcgtgatc
      121 cagtcttgct tcacgcgcgg gctcgcgctc cggctcccgc cctgcctccg gctcgcagtc
      181 cccggcgcct tccttcgcgg tccaggccgc cccgcgtggc gccagcacca tgctcttcta
      241 ctcctttttc aagtctcttg tgggcaagga tgtagtcgtg gaactcaaga atgacctgag
      301 catctgtgga accctccact ctgtggacca gtacctcaat atcaaactaa ccgacatcag
      361 tgtcacagac cctgagaaat accctcacat gttatcagtc aagaactgct tcatcagggg
      421 ctcagtcgtc cgctatgtgc agctgccagc agatgaggtg gacacacaac tgctacagga
      481 tgcagcaagg aaggaagccc ttcagcagaa gcagtgatgg cacctccccc ctccccctca
      541 cttccccatt ggtgacccag aacttgacgt cctactgagg acaagaacac ccctgcccaa
      601 tacttaaggt gtgttttgtt ttgttaatga tttttttttt ttctttttaa ctgaatggat
      661 gagagataat tcctctgctg agaagggagg gtaagagagc caggaactgc agaatggtcc
      721 tggactggct cccagtctgt acctttttct catctttcct ggagatggga gcagcatcct
      781 aagcccttcc gtggcgacat gtaatacatt tgagggatgg aaagatctgt cccgcatcgg
      841 gaataaaact tatgatgcaa gctgaaaaaa aaaaaaaaaa aaaaaaaaaa
//
