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    HP1BP3 heterochromatin protein 1 binding protein 3 [ Sus scrofa (pig) ]

    Gene ID: 100625284, updated on 17-Aug-2024

    Summary

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    Official Symbol
    HP1BP3provided by VGNC
    Official Full Name
    heterochromatin protein 1 binding protein 3provided by VGNC
    Primary source
    VGNC:VGNC:88956
    See related
    Ensembl:ENSSSCG00000003511
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Sus scrofa
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Suina; Suidae; Sus
    Expression
    Ubiquitous expression in lung (RPKM 23.7), ovary (RPKM 22.4) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See HP1BP3 in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    106 current Sscrofa11.1 (GCF_000003025.6) 6 NC_010448.4 (78975551..79007921, complement)
    105 previous assembly Sscrofa10.2 (GCF_000003025.5) 6 NC_010448.3 (73219226..73249015, complement)

    Chromosome 6 - NC_010448.4Genomic Context describing neighboring genes Neighboring gene dolichyl-diphosphooligosaccharide--protein glycosyltransferase non-catalytic subunit Neighboring gene SH2 domain containing 5 Neighboring gene eukaryotic translation initiation factor 4 gamma 3 Neighboring gene endothelin converting enzyme 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Transcriptome data used for gene annotation Transcriptome data used for gene annotation
    • Description: Nine kinds of tissues and a mixture of multiple tissues were sequenced for genome annotation
    • BioProject: PRJNA311523
    • Publication: PMID 27646534
    • Analysis date: Thu Dec 14 17:10:49 2017

    Bibliography

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    Related articles in PubMed

    1. PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Uenishi H, et al. Nucleic Acids Res, 2004 Jan 1. PMID 14681463, Free PMC Article
    2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
    3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables nucleosome binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in heterochromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    involved_in nucleosome assembly IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    part_of nucleosome IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    heterochromatin protein 1-binding protein 3

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Sus scrofa Annotation Release 106 details...Open this link in a new tab

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

    Reference Sscrofa11.1 Primary Assembly

    Genomic

    1. NC_010448.4 Reference Sscrofa11.1 Primary Assembly

      Range
      78975551..79007921 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021097635.1 → XP_020953294.1  heterochromatin protein 1-binding protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8D0ISE7, A0A8D0R6W3
      Conserved Domains (4) summary
      smart00526
      Location:215 → 281
      H15; Domain in histone families 1 and 5
      cd00073
      Location:117 → 207
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:308 → 373
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:421 → 515
      ADK; Adenylate kinase

    2. XM_013999048.2 → XP_013854502.1  heterochromatin protein 1-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A4X1VZ89, A0A8D0R6W3, A0A8D1JHF8, A0A8W4FLI8
      Related
      ENSSSCP00000050966.2, ENSSSCT00000058814.3
      Conserved Domains (4) summary
      smart00526
      Location:253 → 319
      H15; Domain in histone families 1 and 5
      cd00073
      Location:155 → 245
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:346 → 411
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:459 → 553
      ADK; Adenylate kinase

    3. XM_021097638.1 → XP_020953297.1  heterochromatin protein 1-binding protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8D0ISE7, A0A8D0R6W3
      Conserved Domains (4) summary
      smart00526
      Location:215 → 281
      H15; Domain in histone families 1 and 5
      cd00073
      Location:117 → 207
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:308 → 373
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:421 → 515
      ADK; Adenylate kinase

    4. XM_021097637.1 → XP_020953296.1  heterochromatin protein 1-binding protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8D0ISE7, A0A8D0R6W3
      Conserved Domains (4) summary
      smart00526
      Location:215 → 281
      H15; Domain in histone families 1 and 5
      cd00073
      Location:117 → 207
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:308 → 373
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:421 → 515
      ADK; Adenylate kinase

    5. XM_021097636.1 → XP_020953295.1  heterochromatin protein 1-binding protein 3 isoform X3

      UniProtKB/TrEMBL
      A0A8D0ISE7, A0A8D0R6W3
      Conserved Domains (4) summary
      smart00526
      Location:215 → 281
      H15; Domain in histone families 1 and 5
      cd00073
      Location:117 → 207
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:308 → 373
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:421 → 515
      ADK; Adenylate kinase

    6. XM_021097634.1 → XP_020953293.1  heterochromatin protein 1-binding protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A8D0R6W3
      Conserved Domains (4) summary
      smart00526
      Location:252 → 318
      H15; Domain in histone families 1 and 5
      cd00073
      Location:154 → 244
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:345 → 410
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:458 → 552
      ADK; Adenylate kinase

    7. XM_021097633.1 → XP_020953292.1  heterochromatin protein 1-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A4X1VZ89, A0A8D0R6W3, A0A8D1JHF8, A0A8W4FLI8
      Conserved Domains (4) summary
      smart00526
      Location:253 → 319
      H15; Domain in histone families 1 and 5
      cd00073
      Location:155 → 245
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:346 → 411
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:459 → 553
      ADK; Adenylate kinase

    8. XM_021097631.1 → XP_020953290.1  heterochromatin protein 1-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A4X1VZ89, A0A8D0R6W3, A0A8D1JHF8, A0A8W4FLI8
      Related
      ENSSSCP00000080204.1, ENSSSCT00000097797.1
      Conserved Domains (4) summary
      smart00526
      Location:253 → 319
      H15; Domain in histone families 1 and 5
      cd00073
      Location:155 → 245
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:346 → 411
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:459 → 553
      ADK; Adenylate kinase

    9. XM_021097632.1 → XP_020953291.1  heterochromatin protein 1-binding protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A4X1VZ89, A0A8D0R6W3, A0A8D1JHF8, A0A8W4FLI8
      Conserved Domains (4) summary
      smart00526
      Location:253 → 319
      H15; Domain in histone families 1 and 5
      cd00073
      Location:155 → 245
      H15; linker histone 1 and histone 5 domains; the basic subunit of chromatin is the nucleosome, consisting of an octamer of core histones, two full turns of DNA, a linker histone (H1 or H5) and a variable length of linker DNA; H1/H5 are chromatin-associated ...
      pfam00538
      Location:346 → 411
      Linker_histone; linker histone H1 and H5 family
      cl27057
      Location:459 → 553
      ADK; Adenylate kinase

    RNA

    1. XR_002345418.1 RNA Sequence

    2. XR_002345417.1 RNA Sequence

    Nucleotide Protein
    Heading Accession and Version

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