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    Macroh2a1 macroH2A.1 histone [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29384, updated on 9-Dec-2024

    Summary

    Official Symbol
    Macroh2a1provided by RGD
    Official Full Name
    macroH2A.1 histoneprovided by RGD
    Primary source
    RGD:621462
    See related
    EnsemblRapid:ENSRNOG00000011523 AllianceGenome:RGD:621462
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    H2A.y; H2A/y; H2afy; mH2A1
    Summary
    Predicted to enable several functions, including ADP-D-ribose binding activity; DNA binding activity; and promoter-specific chromatin binding activity. Predicted to be a structural constituent of chromatin. Predicted to be involved in several processes, including regulation of gene expression; regulation of phosphate metabolic process; and regulation of response to oxidative stress. Predicted to act upstream of or within sex-chromosome dosage compensation. Located in chromatin. Part of nucleosome. Orthologous to human MACROH2A1 (macroH2A.1 histone). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 102.3), Spleen (RPKM 94.3) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Macroh2a1 in Genome Data Viewer
    Location:
    17p14
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (8484340..8547268)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (8479331..8542071)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (9282109..9344698)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORA17 Neighboring gene TIFA inhibitor Neighboring gene uncharacterized LOC120097948 Neighboring gene uncharacterized LOC134482673

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Interactions

    General gene information

    Clone Names

    • MGC105515

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ADP-D-ribose binding  
    enables ADP-D-ribose binding  
    enables ADP-D-ribose modification-dependent protein binding  
    enables ADP-D-ribose modification-dependent protein binding  
    enables DNA binding  
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding  
    enables chromatin DNA binding  
    enables chromatin DNA binding  
    enables chromatin binding  
    enables double-stranded methylated DNA binding  
    enables enzyme binding  
    enables nucleosomal DNA binding  
    enables promoter-specific chromatin binding  
    enables protein heterodimerization activity  
    enables protein kinase binding  
    enables protein serine/threonine kinase inhibitor activity  
    enables rDNA binding  
    enables structural constituent of chromatin  
    enables structural constituent of chromatin  
    enables structural constituent of chromatin  
    enables transcription cis-regulatory region binding  
    Items 1 - 25 of 28
    Process Evidence Code Pubs
    involved_in DNA repair  
    involved_in biological_process  
    involved_in epigenetic regulation of gene expression  
    involved_in establishment of protein localization to chromatin  
    involved_in heterochromatin formation  
    involved_in negative regulation of cell cycle G2/M phase transition  
    involved_in negative regulation of gene expression, epigenetic  
    involved_in negative regulation of protein localization to chromosome, telomeric region  
    involved_in negative regulation of protein serine/threonine kinase activity  
    involved_in negative regulation of response to oxidative stress  
    involved_in negative regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription by RNA polymerase II  
    involved_in negative regulation of transcription of nucleolar large rRNA by RNA polymerase I  
    involved_in negative regulation of transcription of nucleolar large rRNA by RNA polymerase I  
    involved_in nucleosome assembly  
    involved_in positive regulation of endodermal cell differentiation  
    involved_in positive regulation of keratinocyte differentiation  
    involved_in positive regulation of maintenance of mitotic sister chromatid cohesion  
    involved_in positive regulation of response to oxidative stress  
    involved_in regulation of NAD metabolic process  
    involved_in regulation of NAD metabolic process  
    involved_in regulation of lipid metabolic process  
    involved_in regulation of oxidative phosphorylation  
    NOT involved_in regulation of rDNA heterochromatin formation  
    involved_in regulation of response to oxidative stress  
    acts_upstream_of_or_within sex-chromosome dosage compensation  
    involved_in transcription initiation-coupled chromatin remodeling  
    Items 1 - 25 of 28
    Component Evidence Code Pubs
    located_in Barr body  
    located_in chromatin PubMed 
    located_in chromatin  
    located_in condensed chromosome  
    located_in nuclear chromosome  
    located_in nucleolus  
    located_in nucleoplasm  
    located_in nucleoplasm  
    part_of nucleosome  
    part_of nucleosome PubMed 
    part_of nucleosome  
    is_active_in nucleus  
    located_in nucleus  
    is_active_in nucleus  
    located_in nucleus  
    is_active_in nucleus  
    located_in pericentric heterochromatin  
    is_active_in site of DNA damage  

    General protein information

    Preferred Names
    core histone macro-H2A.1
    Names
    H2A histone family, member Y
    histone macroH2A1

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_017182.3NP_058878.1  core histone macro-H2A.1

      See identical proteins and their annotated locations for NP_058878.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000017
      UniProtKB/Swiss-Prot
      O09140, Q02874, Q63325
      UniProtKB/TrEMBL
      A6KAN9
      Conserved Domains (4) summary
      smart00414
      Location:14119
      H2A; Histone 2A
      cd00074
      Location:5117
      H2A; Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding ...
      cd02904
      Location:178363
      Macro_H2A_like; Macro domain, Macro_H2A_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose ...
      pfam06959
      Location:130172
      RecQ5; RecQ helicase protein-like 5 (RecQ5)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086035.1 Reference GRCr8

      Range
      8484340..8547268
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006253576.5XP_006253638.1  core histone macro-H2A.1 isoform X3

      See identical proteins and their annotated locations for XP_006253638.1

      UniProtKB/Swiss-Prot
      O09140, Q02874, Q63325
      UniProtKB/TrEMBL
      A6KAP1
      Conserved Domains (4) summary
      smart00414
      Location:14119
      H2A; Histone 2A
      cd00074
      Location:5117
      H2A; Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding ...
      cd02904
      Location:178360
      Macro_H2A_like; Macro domain, Macro_H2A_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose ...
      pfam06959
      Location:130172
      RecQ5; RecQ helicase protein-like 5 (RecQ5)
    2. XM_006253573.5XP_006253635.1  core histone macro-H2A.1 isoform X1

      See identical proteins and their annotated locations for XP_006253635.1

      Related
      ENSRNOP00000049143.5, ENSRNOT00000051702.8
      Conserved Domains (3) summary
      smart00414
      Location:14119
      H2A; Histone 2A
      cd00074
      Location:5117
      H2A; Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding ...
      cd02904
      Location:179364
      Macro_H2A_like; Macro domain, Macro_H2A_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose ...
    3. XM_006253575.5XP_006253637.1  core histone macro-H2A.1 isoform X2

      UniProtKB/Swiss-Prot
      O09140, Q02874, Q63325
      UniProtKB/TrEMBL
      A0A140TAB4
      Related
      ENSRNOP00000015632.5, ENSRNOT00000015632.8
      Conserved Domains (3) summary
      smart00414
      Location:14119
      H2A; Histone 2A
      cd00074
      Location:5117
      H2A; Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding ...
      cd02904
      Location:179361
      Macro_H2A_like; Macro domain, Macro_H2A_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose ...
    4. XM_039095579.2XP_038951507.1  core histone macro-H2A.1 isoform X4

      UniProtKB/TrEMBL
      A6KAP2
      Conserved Domains (2) summary
      cd00074
      Location:5117
      H2A; Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding ...
      cl00019
      Location:178196
      Macro_SF; macrodomain superfamily
    5. XM_039095580.2XP_038951508.1  core histone macro-H2A.1 isoform X5

      UniProtKB/TrEMBL
      A0A8I5ZW79, A6KAP2
      Conserved Domains (2) summary
      cd00074
      Location:5117
      H2A; Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding ...
      cl00019
      Location:177195
      Macro_SF; macrodomain superfamily

    RNA

    1. XR_005495266.2 RNA Sequence

    2. XR_010058850.1 RNA Sequence

    3. XR_010058851.1 RNA Sequence

    4. XR_005495267.2 RNA Sequence

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