LOCUS       NM_001159513            1975 bp    mRNA    linear   ROD 10-FEB-2025
DEFINITION  Mus musculus macroH2A.1 histone (Macroh2a1), transcript variant 2,
            mRNA.
ACCESSION   NM_001159513 XM_001476780
VERSION     NM_001159513.1
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 1975)
  AUTHORS   Arroyo,M., Casas-Delucchi,C.S., Pabba,M.K., Prorok,P.,
            Pradhan,S.K., Rausch,C., Lehmkuhl,A., Maiser,A., Buschbeck,M.,
            Pasque,V., Bernstein,E., Luck,K. and Cardoso,M.C.
  TITLE     Histone variant macroH2A1 regulates synchronous firing of
            replication origins in the inactive X chromosome
  JOURNAL   Nucleic Acids Res 52 (19), 11659-11688 (2024)
   PUBMED   39189450
  REMARK    GeneRIF: Histone variant macroH2A1 regulates synchronous firing of
            replication origins in the inactive X chromosome.
REFERENCE   2  (bases 1 to 1975)
  AUTHORS   Chiodi,V., Rappa,F., Lo Re,O., Chaldakov,G.N., Lelouvier,B.,
            Micale,V., Domenici,M.R. and Vinciguerra,M.
  TITLE     Deficiency of histone variant macroH2A1.1 is associated with
            sexually dimorphic obesity in mice
  JOURNAL   Sci Rep 13 (1), 19123 (2023)
   PUBMED   37926763
  REMARK    GeneRIF: Deficiency of histone variant macroH2A1.1 is associated
            with sexually dimorphic obesity in mice.
            Publication Status: Online-Only
REFERENCE   3  (bases 1 to 1975)
  AUTHORS   Filipescu,D., Carcamo,S., Agarwal,A., Tung,N., Humblin,E.,
            Goldberg,M.S., Vyas,N.S., Beaumont,K.G., Demircioglu,D.,
            Sridhar,S., Ghiraldini,F.G., Capparelli,C., Aplin,A.E., Salmon,H.,
            Sebra,R., Kamphorst,A.O., Merad,M., Hasson,D. and Bernstein,E.
  TITLE     MacroH2A restricts inflammatory gene expression in melanoma
            cancer-associated fibroblasts by coordinating chromatin looping
  JOURNAL   Nat Cell Biol 25 (9), 1332-1345 (2023)
   PUBMED   37605008
  REMARK    GeneRIF: MacroH2A restricts inflammatory gene expression in
            melanoma cancer-associated fibroblasts by coordinating chromatin
            looping.
REFERENCE   4  (bases 1 to 1975)
  AUTHORS   Liu,H., He,L., Cheng,Q., Luo,W., Zhao,T. and Yang,D.
  TITLE     Validation of superior reference genes in mouse submandibular
            glands under developmental and functional regeneration states
  JOURNAL   Int J Mol Med 50 (5) (2022)
   PUBMED   36069228
REFERENCE   5  (bases 1 to 1975)
  AUTHORS   Singh,G., Stefanelli,G., Narkaj,K., Brimble,M.A., Creighton,S.D.,
            McLean,T.A.B., Hall,M., Mitchnick,K.A., Zakaria,J., Phung,T.,
            Reda,A., Leonetti,A.M., Monks,A., Ianov,L., Winters,B.D.,
            Walters,B.J., Davidoff,A.M., Mitchell,J.A. and Zovkic,I.B.
  TITLE     Histone macroH2A1 is a stronger regulator of hippocampal
            transcription and memory than macroH2A2 in mice
  JOURNAL   Commun Biol 5 (1), 482 (2022)
   PUBMED   35590030
  REMARK    GeneRIF: Histone macroH2A1 is a stronger regulator of hippocampal
            transcription and memory than macroH2A2 in mice.
            Erratum:[Commun Biol. 2022 May 27;5(1):531. doi:
            10.1038/s42003-022-03515-5.. PMID: 35624301]
            Publication Status: Online-Only
REFERENCE   6  (bases 1 to 1975)
  AUTHORS   Shaytan,A.K., Landsman,D. and Panchenko,A.R.
  TITLE     Nucleosome adaptability conferred by sequence and structural
            variations in histone H2A-H2B dimers
  JOURNAL   Curr Opin Struct Biol 32, 48-57 (2015)
   PUBMED   25731851
  REMARK    Review article
REFERENCE   7  (bases 1 to 1975)
  AUTHORS   Costanzi,C. and Pehrson,J.R.
  TITLE     MACROH2A2, a new member of the MARCOH2A core histone family
  JOURNAL   J Biol Chem 276 (24), 21776-21784 (2001)
   PUBMED   11262398
REFERENCE   8  (bases 1 to 1975)
  AUTHORS   Chadwick,B.P. and Willard,H.F.
  TITLE     Histone H2A variants and the inactive X chromosome: identification
            of a second macroH2A variant
  JOURNAL   Hum Mol Genet 10 (10), 1101-1113 (2001)
   PUBMED   11331621
REFERENCE   9  (bases 1 to 1975)
  AUTHORS   Rasmussen,T.P., Huang,T., Mastrangelo,M.A., Loring,J., Panning,B.
            and Jaenisch,R.
  TITLE     Messenger RNAs encoding mouse histone macroH2A1 isoforms are
            expressed at similar levels in male and female cells and result
            from alternative splicing
  JOURNAL   Nucleic Acids Res 27 (18), 3685-3689 (1999)
   PUBMED   10471737
REFERENCE   10 (bases 1 to 1975)
  AUTHORS   Costanzi,C. and Pehrson,J.R.
  TITLE     Histone macroH2A1 is concentrated in the inactive X chromosome of
            female mammals
  JOURNAL   Nature 393 (6685), 599-601 (1998)
   PUBMED   9634239
COMMENT     REVIEWED REFSEQ: This record has been curated by NCBI staff. The
            reference sequence was derived from CJ095488.1, BB633156.1,
            AB071988.2, CV561613.1, AK003531.1 and BE988321.1.
            
            On Jan 16, 2010 this sequence version replaced XM_001476780.1.
            
            Summary: Histones are basic nuclear proteins that are responsible
            for the nucleosome structure of the chromosomal fiber in
            eukaryotes. Nucleosomes consist of approximately 146 bp of DNA
            wrapped around a histone octamer composed of pairs of each of the
            four core histones (H2A, H2B, H3, and H4). The chromatin fiber is
            further compacted through the interaction of a linker histone, H1,
            with the DNA between the nucleosomes to form higher order chromatin
            structures. This gene encodes a replication-independent histone
            that is a member of the histone H2A family. It replaces
            conventional H2A histones in a subset of nucleosomes where it
            represses transcription and participates in stable X chromosome
            inactivation. Alternative splicing results in multiple transcript
            variants encoding different isoforms. [provided by RefSeq, Nov
            2015].
            
            Transcript Variant: This variant (2) uses an alternate in-frame
            splice site in the central coding region, compared to variant 1.
            The resulting isoform (2) lacks one internal residue, compared to
            isoform 1.
            
            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##
            RNAseq introns :: single sample supports all introns SAMN01164135,
                              SAMN01164138 [ECO:0000348]
            ##Evidence-Data-END##
            
            ##RefSeq-Attributes-START##
            RefSeq Select criteria          :: based on conservation,
                                               expression
            replication-independent histone :: PMID: 25731851
            ##RefSeq-Attributes-END##
            COMPLETENESS: complete on the 3' end.
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-24                CJ095488.1         1-24
            25-131              BB633156.1         6-112
            132-673             AB071988.2         68-609
            674-1435            CV561613.1         1-762
            1436-1958           AK003531.1         207-729
            1959-1975           BE988321.1         1-17                c
FEATURES             Location/Qualifiers
     source          1..1975
                     /organism="Mus musculus"
                     /mol_type="mRNA"
                     /strain="C57BL/6"
                     /db_xref="taxon:10090"
                     /chromosome="13"
                     /map="13 30.06 cM"
     gene            1..1975
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /note="macroH2A.1 histone"
                     /db_xref="GeneID:26914"
                     /db_xref="MGI:MGI:1349392"
     exon            1..205
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     exon            206..410
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     CDS             239..1354
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /note="isoform 2 is encoded by transcript variant 2; core
                     histone macro-H2A.1; H2A.y; H2A/y; histone macroH2A1;
                     MACROH2A1.2; H2A histone family, member Y"
                     /codon_start=1
                     /product="core histone macro-H2A.1 isoform 2"
                     /protein_id="NP_001152985.1"
                     /db_xref="GeneID:26914"
                     /db_xref="MGI:MGI:1349392"
                     /translation="MSSRGGKKKSTKTSRSAKAGVIFPVGRMLRYIKKGHPKYRIGVG
                     APVYMAAVLEYLTAEILELAGNAARDNKKGRVTPRHILLAVANDEELNQLLKGVTIAS
                     GGVLPNIHPELLAKKRGSKGKLEAIITPPPAKKAKSPSQKKPVAKKTGGKKGARKSKK
                     QGEVSKAASADSTTEGTPTDGFTVLSTKSLFLGQKLNLIHSEISNLAGFEVEAIINPT
                     NADIDLKDDLGNTLEKKGGKEFVEAVLELRKKNGPLEVAGAAISAGHGLPAKFVIHCN
                     SPVWGADKCEELLEKTVKNCLALADDRKLKSIAFPSIGSGRNGFPKQTAAQLILKAIS
                     SYFVSTMSSSIKTVYFMLFDSESIGIYVQEMAKLDAN"
     exon            411..517
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     exon            518..715
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     exon            716..823
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     exon            824..923
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     exon            924..1013
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1014..1188
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     exon            1189..1959
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /inference="alignment:Splign:2.1.0"
     regulatory      1940..1945
                     /regulatory_class="polyA_signal_sequence"
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /note="hexamer: AGTAAA"
     polyA_site      1959
                     /gene="Macroh2a1"
                     /gene_synonym="H2AF12M; H2afy; mH2a1"
                     /note="major polyA site"
ORIGIN      
        1 tgacgagcgg cgcgctgtgc attgtgggaa tcccggggcc gccgcgagtg gttccagttc
       61 actggttcca gcggagccgg gcggagggcg cgagcgcggg acgcgcgggc gggaagcgag
      121 gaggcgtggg cggccaggca ggagtgcgga gcggaccggc gcaagcggcc gaccggcctc
      181 gggcccctca ccgtgcagcc gcccgtgagc tcgctgatct gtttctgggg ctgtcgccat
      241 gtcgagccgc ggcgggaaga agaaatccac caagacctcc cggtcagcca aggccggagt
      301 catcttccct gtgggacgca tgcttcggta catcaagaaa ggccacccta agtataggat
      361 cggagtgggg gcacctgtgt acatggctgc tgtcctggag tacctgactg ctgagatcct
      421 ggagctggct ggcaatgcag caagagacaa caagaaggga cgggtcacac cccggcacat
      481 cctgttagct gtggccaatg atgaagagct aaaccagctg ctaaagggtg tcaccatagc
      541 cagcgggggc gtgttgccga atatccatcc tgagttgcta gcgaagaagc gaggatccaa
      601 gggaaaattg gaagccatca tcacgcctcc gccggccaaa aaggccaagt ctccatccca
      661 gaagaagcca gtggctaaga agacaggagg caagaaaggg gcccggaagt ctaagaagca
      721 gggagaagtg agcaaggcgg ccagcgcaga cagtacgacg gagggcacgc ctacagacgg
      781 cttcactgtc ctctccacca agagcctctt cctcggccag aagctgaacc ttattcacag
      841 tgaaatcagt aatttagccg gctttgaggt ggaggccata atcaatccta ccaatgctga
      901 cattgacctt aaagatgacc taggaaacac actggagaag aagggcggca aggagtttgt
      961 agaagctgtt ctggaactcc ggaaaaagaa cgggcccttg gaggtagctg gagctgctat
     1021 tagtgcaggc catggcctgc ctgccaagtt tgtgatccac tgtaatagtc ctgtctgggg
     1081 tgcagacaaa tgtgaagaac ttctagaaaa gacggtgaaa aactgcttgg ctctagctga
     1141 tgacagaaag ctgaaatcca tcgccttccc atccattggc agcggcagga acgggttccc
     1201 gaagcagaca gcggcccagc tcattctgaa ggccatctcc agctactttg tctccacgat
     1261 gtcctcctcc atcaaaactg tgtacttcat gctttttgac agtgagagca taggtatcta
     1321 tgtgcaggaa atggccaagc tggacgccaa ctaggccagt gatccctaga gccagcacat
     1381 gcggtgtccc ccacctccaa ctggaaagaa agaaaaaaaa aagagagaaa aaaaaatccc
     1441 ctcgcctggg actcctgtcc tcctcagtcc cgctcaccta gggaaaataa ggttttggtt
     1501 tccggtttga ttggtttttt tttttttggc cttctacaat gttttctgtt agcactgata
     1561 gccggcatcg tccttgttaa gcactgcttt ccagaccgtg tctgacttag tcaacctaga
     1621 ggattttata gtttcactct aatgaagtcc tgattaacac agagcagcgg agcagcggtc
     1681 cctcccctga gtggcagcag caggaagccc cgtttgtaat gtgcgttgcg ctgctttacc
     1741 gtacacccag tggcattctt tttactataa cggttttccc ccctctcaga agagaaatct
     1801 taaaatttgc aacagacctc ctaacttttg tttacttttt ttgtcttaac gatagatttg
     1861 aaaatgaaaa atgttaaaaa gacaactgga tctgttgtcc gtattatatt tgcaatctga
     1921 aatttgtgtg aattgattta gtaaaatgtt aaactgttaa aaaaaaaaaa aaaaa
//
