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    Pbrm1 polybromo 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306254, updated on 9-Dec-2024

    Summary

    Official Symbol
    Pbrm1provided by RGD
    Official Full Name
    polybromo 1provided by RGD
    Primary source
    RGD:1565549
    See related
    EnsemblRapid:ENSRNOG00000028227 AllianceGenome:RGD:1565549
    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
    RGD1565549
    Summary
    Predicted to enable chromatin binding activity. Involved in positive regulation of dendritic spine development. Predicted to be located in kinetochore and nucleoplasm. Predicted to be part of RSC-type complex and SWI/SNF complex. Human ortholog(s) of this gene implicated in extrahepatic bile duct adenocarcinoma; lung non-small cell carcinoma; lung small cell carcinoma; and renal cell carcinoma. Orthologous to human PBRM1 (polybromo 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 264.5), Spleen (RPKM 189.9) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Pbrm1 in Genome Data Viewer
    Location:
    16p16
    Exon count:
    36
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 16 NC_086034.1 (6219933..6319336)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 16 NC_051351.1 (6213507..6312895)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (7103714..7202899)

    Chromosome 16 - NC_086034.1Genomic Context describing neighboring genes Neighboring gene small nucleolar RNA SNORD19B Neighboring gene small nucleolar RNA, C/D box 19 Neighboring gene G protein nucleolar 3 Neighboring gene ubiquinol-cytochrome c reductase complex assembly factor 5 Neighboring gene 5'-nucleotidase domain containing 2 Neighboring gene stabilin 1

    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

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding  
    enables chromatin binding  
    enables chromatin binding  
    Component Evidence Code Pubs
    part_of RSC-type complex  
    part_of SWI/SNF complex  
    part_of SWI/SNF complex  
    located_in kinetochore  
    located_in nucleoplasm  
    located_in nucleus  

    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_001427685.1NP_001414614.1  protein polybromo-1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000016
      UniProtKB/TrEMBL
      A0A8I5ZMW9
      Related
      ENSRNOP00000079535.2, ENSRNOT00000094186.2

    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_086034.1 Reference GRCr8

      Range
      6219933..6319336
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063275299.1XP_063131369.1  protein polybromo-1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    2. XM_063275315.1XP_063131385.1  protein polybromo-1 isoform X13

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    3. XM_063275317.1XP_063131387.1  protein polybromo-1 isoform X14

      UniProtKB/TrEMBL
      A0A8I5ZMW9
      Related
      ENSRNOP00000104472.1, ENSRNOT00000136414.1
    4. XM_063275302.1XP_063131372.1  protein polybromo-1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    5. XM_063275305.1XP_063131375.1  protein polybromo-1 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    6. XM_063275308.1XP_063131378.1  protein polybromo-1 isoform X5

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    7. XM_063275301.1XP_063131371.1  protein polybromo-1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    8. XM_063275338.1XP_063131408.1  protein polybromo-1 isoform X35

      UniProtKB/TrEMBL
      A0A8I6AR61
    9. XM_063275298.1XP_063131368.1  protein polybromo-1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    10. XM_039095102.2XP_038951030.1  protein polybromo-1 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZMW9
      Conserved Domains (8) summary
      cd05515
      Location:695799
      Bromo_polybromo_V; Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. ...
      cd05517
      Location:203305
      Bromo_polybromo_II; Bromodomain, polybromo repeat II. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. ...
      cd05518
      Location:556659
      Bromo_polybromo_IV; Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. ...
      cd05520
      Location:404505
      Bromo_polybromo_III; Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. ...
      cd05524
      Location:65177
      Bromo_polybromo_I; Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. ...
      cd05526
      Location:812919
      Bromo_polybromo_VI; Bromodomain, polybromo repeat VI. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. ...
      cd00084
      Location:14171481
      HMG-box; High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I ...
      cd04717
      Location:9941111
      BAH_polybromo; BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional ...
    11. XM_063275320.1XP_063131390.1  protein polybromo-1 isoform X17

      UniProtKB/TrEMBL
      A0A8I6AR61
    12. XM_063275334.1XP_063131404.1  protein polybromo-1 isoform X31

      UniProtKB/TrEMBL
      A0A8I6G5U9
    13. XM_063275306.1XP_063131376.1  protein polybromo-1 isoform X4

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    14. XM_063275311.1XP_063131381.1  protein polybromo-1 isoform X9

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    15. XM_063275323.1XP_063131393.1  protein polybromo-1 isoform X20

      UniProtKB/TrEMBL
      A0A8I6AR61
    16. XM_063275303.1XP_063131373.1  protein polybromo-1 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    17. XM_063275310.1XP_063131380.1  protein polybromo-1 isoform X8

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    18. XM_063275319.1XP_063131389.1  protein polybromo-1 isoform X16

      UniProtKB/TrEMBL
      D3ZT52
      Related
      ENSRNOP00000016581.8, ENSRNOT00000016581.10
    19. XM_063275321.1XP_063131391.1  protein polybromo-1 isoform X18

      UniProtKB/TrEMBL
      A0A8I6AR61
    20. XM_063275335.1XP_063131405.1  protein polybromo-1 isoform X32

      UniProtKB/TrEMBL
      A0A8I6G5U9
    21. XM_063275336.1XP_063131406.1  protein polybromo-1 isoform X33

      UniProtKB/TrEMBL
      A0A8I6G5U9
    22. XM_063275327.1XP_063131397.1  protein polybromo-1 isoform X24

      UniProtKB/TrEMBL
      A0A8I6AR61
    23. XM_063275312.1XP_063131382.1  protein polybromo-1 isoform X10

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    24. XM_063275325.1XP_063131395.1  protein polybromo-1 isoform X22

      UniProtKB/TrEMBL
      D3ZT52
    25. XM_063275328.1XP_063131398.1  protein polybromo-1 isoform X25

      UniProtKB/TrEMBL
      A0A8I6AR61
    26. XM_063275339.1XP_063131409.1  protein polybromo-1 isoform X36

      UniProtKB/TrEMBL
      A0A8I6G5U9
    27. XM_063275313.1XP_063131383.1  protein polybromo-1 isoform X11

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    28. XM_063275326.1XP_063131396.1  protein polybromo-1 isoform X23

      UniProtKB/TrEMBL
      D3ZT52
    29. XM_063275329.1XP_063131399.1  protein polybromo-1 isoform X26

      UniProtKB/TrEMBL
      A0A8I6AR61
      Related
      ENSRNOP00000096705.2, ENSRNOT00000096494.2
    30. XM_063275340.1XP_063131410.1  protein polybromo-1 isoform X37

      UniProtKB/TrEMBL
      A0A8I6G5U9
    31. XM_063275314.1XP_063131384.1  protein polybromo-1 isoform X12

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    32. XM_063275316.1XP_063131386.1  protein polybromo-1 isoform X13

      UniProtKB/TrEMBL
      A0A8I5ZMW9
      Related
      ENSRNOP00000106061.1, ENSRNOT00000147340.1
    33. XM_063275343.1XP_063131413.1  protein polybromo-1 isoform X40

      UniProtKB/TrEMBL
      A0A8I6G5U9
      Related
      ENSRNOP00000081368.1, ENSRNOT00000109995.2
    34. XM_063275332.1XP_063131402.1  protein polybromo-1 isoform X29

      UniProtKB/TrEMBL
      A0A8I6AR61, A0A8I6AV81
      Related
      ENSRNOP00000092107.2, ENSRNOT00000104141.2
    35. XM_063275318.1XP_063131388.1  protein polybromo-1 isoform X15

      UniProtKB/TrEMBL
      A0A8I5ZMW9
      Related
      ENSRNOP00000112238.1, ENSRNOT00000137529.1
    36. XM_063275333.1XP_063131403.1  protein polybromo-1 isoform X30

      UniProtKB/TrEMBL
      A0A8I6AR61
    37. XM_063275346.1XP_063131416.1  protein polybromo-1 isoform X43

      UniProtKB/TrEMBL
      A0A8I6AR61
    38. XM_063275345.1XP_063131415.1  protein polybromo-1 isoform X42

      UniProtKB/TrEMBL
      A0A8I6G5U9
    39. XM_063275304.1XP_063131374.1  protein polybromo-1 isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    40. XM_063275307.1XP_063131377.1  protein polybromo-1 isoform X5

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    41. XM_063275322.1XP_063131392.1  protein polybromo-1 isoform X19

      UniProtKB/TrEMBL
      D3ZT52
    42. XM_063275324.1XP_063131394.1  protein polybromo-1 isoform X21

      UniProtKB/TrEMBL
      A0A8I6AR61
    43. XM_063275337.1XP_063131407.1  protein polybromo-1 isoform X34

      UniProtKB/TrEMBL
      A0A8I6G5U9
    44. XM_063275330.1XP_063131400.1  protein polybromo-1 isoform X27

      UniProtKB/TrEMBL
      A0A8I6AR61
    45. XM_063275341.1XP_063131411.1  protein polybromo-1 isoform X38

      UniProtKB/TrEMBL
      A0A8I6G5U9
    46. XM_063275331.1XP_063131401.1  protein polybromo-1 isoform X28

      UniProtKB/TrEMBL
      A0A8I6AR61
    47. XM_063275344.1XP_063131414.1  protein polybromo-1 isoform X41

      UniProtKB/TrEMBL
      A0A8I6G5U9
    48. XM_063275309.1XP_063131379.1  protein polybromo-1 isoform X6

      UniProtKB/TrEMBL
      A0A8I5ZMW9
    49. XM_063275342.1XP_063131412.1  protein polybromo-1 isoform X39

      UniProtKB/TrEMBL
      A0A8I6G5U9
    50. XM_063275300.1XP_063131370.1  protein polybromo-1 isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZMW9
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