LOCUS       NM_001271446             982 bp    mRNA    linear   ROD 28-JAN-2025
DEFINITION  Mus musculus lymphocyte antigen 6 family member A (Ly6a),
            transcript variant 6, mRNA.
ACCESSION   NM_001271446
VERSION     NM_001271446.1
KEYWORDS    RefSeq.
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 982)
  AUTHORS   Coren,L., Zaffryar-Eilot,S., Odeh,A., Kaganovsky,A. and Hasson,P.
  TITLE     Fibroblast diversification is an embryonic process dependent on
            muscle contraction
  JOURNAL   Cell Rep 43 (12), 115034 (2024)
   PUBMED   39636726
REFERENCE   2  (bases 1 to 982)
  AUTHORS   Zhu,Z., Zou,Q., Wang,C., Li,D., Yang,Y., Xiao,Y., Jin,Y., Yan,J.,
            Luo,L., Sun,Y. and Liang,X.
  TITLE     Isl Identifies the Extraembryonic Mesodermal/Allantois Progenitors
            and is Required for Placenta Morphogenesis and Vasculature
            Formation
  JOURNAL   Adv Sci (Weinh) 11 (32), e2400238 (2024)
   PUBMED   38923264
REFERENCE   3  (bases 1 to 982)
  AUTHORS   Rao,J., Djeffal,Y., Chal,J., Marchiano,F., Wang,C.H., Al
            Tanoury,Z., Gapon,S., Mayeuf-Louchart,A., Glass,I., Sefton,E.M.,
            Habermann,B., Kardon,G., Watt,F.M., Tseng,Y.H. and Pourquie,O.
  TITLE     Reconstructing human brown fat developmental trajectory in vitro
  JOURNAL   Dev Cell 58 (21), 2359-2375 (2023)
   PUBMED   37647896
REFERENCE   4  (bases 1 to 982)
  AUTHORS   Ni,Z., Lyu,L., Gong,H., Du,L., Wen,Z., Jiang,H., Yang,H., Hu,Y.,
            Zhang,B., Xu,Q., Guo,X. and Chen,T.
  TITLE     Multilineage commitment of Sca-1+ cells in reshaping vein grafts
  JOURNAL   Theranostics 13 (7), 2154-2175 (2023)
   PUBMED   37153747
  REMARK    Publication Status: Online-Only
REFERENCE   5  (bases 1 to 982)
  AUTHORS   Koren,E., Feldman,A., Yusupova,M., Kadosh,A., Sedov,E., Ankawa,R.,
            Yosefzon,Y., Nasser,W., Gerstberger,S., Kimel,L.B., Priselac,N.,
            Brown,S., Sharma,S., Gorenc,T., Shalom-Feuerstein,R., Steller,H.,
            Shemesh,T. and Fuchs,Y.
  TITLE     Thy1 marks a distinct population of slow-cycling stem cells in the
            mouse epidermis
  JOURNAL   Nat Commun 13 (1), 4628 (2022)
   PUBMED   35941116
  REMARK    Publication Status: Online-Only
REFERENCE   6  (bases 1 to 982)
  AUTHORS   Bamezai,A.
  TITLE     Mouse Ly-6 proteins and their extended family: markers of cell
            differentiation and regulators of cell signaling
  JOURNAL   Arch Immunol Ther Exp (Warsz) 52 (4), 255-266 (2004)
   PUBMED   15467490
  REMARK    Review article
REFERENCE   7  (bases 1 to 982)
  AUTHORS   Stanford,W.L., Bruyns,E. and Snodgrass,H.R.
  TITLE     The isolation and sequence of the chromosomal gene and regulatory
            regions of Ly-6A.2
  JOURNAL   Immunogenetics 35 (6), 408-411 (1992)
   PUBMED   1315719
REFERENCE   8  (bases 1 to 982)
  AUTHORS   McGrew,J.T. and Rock,K.L.
  TITLE     Isolation, expression, and sequence of the TAP/Ly-6A.2 chromosomal
            gene
  JOURNAL   J Immunol 146 (10), 3633-3638 (1991)
   PUBMED   1709198
REFERENCE   9  (bases 1 to 982)
  AUTHORS   Khan,K.D., Lindwall,G., Maher,S.E. and Bothwell,A.L.
  TITLE     Characterization of promoter elements of an interferon-inducible
            Ly-6E/A differentiation antigen, which is expressed on activated T
            cells and hematopoietic stem cells
  JOURNAL   Mol Cell Biol 10 (10), 5150-5159 (1990)
   PUBMED   1697928
REFERENCE   10 (bases 1 to 982)
  AUTHORS   Palfree,R.G., LeClair,K.P., Bothwell,A. and Hammerling,U.
  TITLE     cDNA characterization of an Ly-6.2 gene expressed in BW5147 tumor
            cells
  JOURNAL   Immunogenetics 26 (6), 389-391 (1987)
   PUBMED   2822573
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AC124637.10.
            
            Transcript Variant: This variant (6) uses two alternate splice
            sites in the 5' UTR, compared to variant 1. Variants 1, 2, 3, 4, 5,
            and 6 encode the same protein.
            
            Sequence Note: The RefSeq transcript and protein were derived from
            genomic sequence to make the sequence consistent with the reference
            genome assembly. The genomic coordinates used for the transcript
            record were based on 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##
            CDS exon combination :: BF580159.1, BF687237.1 [ECO:0000331]
            RNAseq introns       :: partial sample support SAMN00849380,
                                    SAMN00849381 [ECO:0000350]
            ##Evidence-Data-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-179               AC124637.10        108335-108513       c
            180-262             AC124637.10        108017-108099       c
            263-379             AC124637.10        106934-107050       c
            380-982             AC124637.10        105359-105961       c
FEATURES             Location/Qualifiers
     source          1..982
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="15"
                     /map="15 34.29 cM"
     gene            1..982
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /note="lymphocyte antigen 6 family member A"
                     /db_xref="GeneID:110454"
                     /db_xref="MGI:MGI:107527"
     exon            1..179
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /inference="alignment:Splign:2.1.0"
     exon            180..262
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /inference="alignment:Splign:2.1.0"
     CDS             193..597
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /note="lymphocyte antigen 6A-2/6E-1; stem cell antigen 1;
                     T-cell-activating protein; lymphocyte antigen 6 complex,
                     locus A"
                     /codon_start=1
                     /product="lymphocyte antigen 6A-2/6E-1 precursor"
                     /protein_id="NP_001258375.1"
                     /db_xref="CCDS:CCDS27540.1"
                     /db_xref="GeneID:110454"
                     /db_xref="MGI:MGI:107527"
                     /translation="MDTSHTTKSCLLILLVALLCAERAQGLECYQCYGVPFETSCPSI
                     TCPYPDGVCVTQEAAVIVDSQTRKVKNNLCLPICPPNIESMEILGTKVNVKTSCCQED
                     LCNVAVPNGGSTWTMAGVLLFSLSSVLLQTLL"
     exon            263..379
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /inference="alignment:Splign:2.1.0"
     exon            380..982
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /inference="alignment:Splign:2.1.0"
     regulatory      962..967
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /note="hexamer: AATAAA"
     polyA_site      982
                     /gene="Ly6a"
                     /gene_synonym="Ly-6A.2; Ly-6A/E; Ly-6E.1; Sca-1; Sca1;
                     TAP"
                     /note="major polyA site"
ORIGIN      
        1 cttaaccaat aaacatgatg gcctggaaaa ggttaagtac tgaaacccct ccctcttcag
       61 gatgccagct gggaggagct gaaggaaatt aaagtacttc agtccacatc tgacagaact
      121 tgccactgtg cctgcaacct tgtctgagag gaagtaagga ctggtgtgag gagggagctc
      181 ccttctctga ggatggacac ttctcacact acaaagtcct gtttgctgat tcttcttgtg
      241 gccctactgt gtgcagaaag agctcaggga ctggagtgtt accagtgcta tggagtccca
      301 tttgagactt cttgcccatc aattacctgc ccctaccctg atggagtctg tgttactcag
      361 gaggcagcag ttattgtgga ttctcaaaca aggaaagtaa agaacaatct ttgcttaccc
      421 atctgccctc ctaatattga aagtatggag atcctgggta ctaaggtcaa cgtgaagact
      481 tcctgttgcc aggaagacct ctgcaatgta gcagttccca atggaggcag cacctggacc
      541 atggcagggg tgcttctgtt cagcctgagc tcagtcctcc tgcagacctt gctctgatgg
      601 tcctcccaat gacctccacc cttgtccttt tatcctcatg tgcaacaatt cttcctggag
      661 ccctctagtg atgaattatg agttatagaa gctccaaggt gggagtagtg tgtgaaatac
      721 catgttttgc ctttatagcc cctgctgggt aggtaggtgc tctaatcctc tctagggctt
      781 tcaagtctgt acttcctaga atgtcatttt gttgtggatt gctgctcatg accctggagg
      841 cacacagcca gcacagtgaa gaggcagaat tccaaggtat tatgctatca ccatccacac
      901 ataagtatct ggggtcctgc aatgttccca catgtatcct gaatgtcccc ctgttgagtc
      961 caataaaccc tttgttctcc ca
//
