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    Pds5b PDS5 cohesin associated factor B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 304218, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Pds5bprovided by RGD
    Official Full Name
    PDS5 cohesin associated factor Bprovided by RGD
    Primary source
    RGD:1310838
    See related
    EnsemblRapid:ENSRNOG00000001098 AllianceGenome:RGD:1310838
    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
    AS3; Aprin; CG008
    Summary
    Predicted to enable DNA binding activity. Involved in negative regulation of cell population proliferation. Located in nucleus. Orthologous to human PDS5B (PDS5 cohesin associated factor B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 136.9), Brain (RPKM 125.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Pds5b in Genome Data Viewer
    Location:
    12p12
    Exon count:
    39
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (5038114..5181208)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (202481..345596)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (659995..794042)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene BRCA2, DNA repair associated Neighboring gene NEDD4 binding protein 2-like 1 Neighboring gene NEDD4 binding protein 2-like 2 Neighboring gene U6 spliceosomal RNA Neighboring gene small nucleolar RNA SNORA17 Neighboring gene uncharacterized LOC120095865 Neighboring gene uncharacterized LOC102548900

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. Mechanism of androgen action on cell proliferation: AS3 protein as a mediator of proliferative arrest in the rat prostate. Maffini MV, et al. Endocrinology, 2002 Jul. PMID 12072405
    2. Androgen-induced proliferative quiescence in prostate cancer cells: the role of AS3 as its mediator. Geck P, et al. Proc Natl Acad Sci U S A, 2000 Aug 29. PMID 10963680, Free PMC Article
    3. Dosage effects of cohesin regulatory factor PDS5 on mammalian development: implications for cohesinopathies. Zhang B, et al. PLoS One, 2009. PMID 19412548, Free PMC Article
    4. Functional contribution of Pds5 to cohesin-mediated cohesion in human cells and Xenopus egg extracts. Losada A, et al. J Cell Sci, 2005 May 15. PMID 15855230
    5. Human Scc4 is required for cohesin binding to chromatin, sister-chromatid cohesion, and mitotic progression. Watrin E, et al. Curr Biol, 2006 May 9. PMID 16682347

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. AS3 is a mediator of the proliferative arrest in the normal rat prostate in situ and that its expression is androgen-induced (AS3 protein)
      Title: Mechanism of androgen action on cell proliferation: AS3 protein as a mediator of proliferative arrest in the rat prostate.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Clone Names

    • FLJ23236, KIAA0979

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA repair IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within lens development in camera-type eye ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic sister chromatid cohesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mitotic sister chromatid cohesion IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mitotic sister chromatid cohesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic sister chromatid cohesion ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in negative regulation of cell population proliferation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of cell population proliferation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within regulation of cell population proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in chromatin IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in chromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    sister chromatid cohesion protein PDS5 homolog B
    Names
    PDS5, regulator of cohesion maintenance, homolog B
    androgen-induced prostate proliferative shutoff associated protein
    androgen-induced prostate proliferative shutoff-associated protein AS3
    androgen-induced shutoff 3

    NCBI Reference Sequences (RefSeq)

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    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_001101805.1 → NP_001095275.1  sister chromatid cohesion protein PDS5 homolog B isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks alternate in-frame segments in the 3' coding region, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1.
      Source sequence(s)
      CK357543, JAXUCZ010000012
      UniProtKB/TrEMBL
      D3ZU56, D3ZXE2
      Related
      ENSRNOP00000001464.5, ENSRNOT00000001464.9
      Conserved Domains (2) summary
      pfam05793
      Location:1168 → 1384
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]

    2. NM_001102383.2 → NP_001095853.1  sister chromatid cohesion protein PDS5 homolog B isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and it encodes the longer protein (isoform 1).
      Source sequence(s)
      CK357543, JAXUCZ010000012
      UniProtKB/TrEMBL
      D3ZXE2, F1M797
      Related
      ENSRNOP00000040297.6, ENSRNOT00000050733.8
      Conserved Domains (2) summary
      pfam05793
      Location:1211 → 1421
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]

    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_086030.1 Reference GRCr8

      Range
      5038114..5181208
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089323.2 → XP_038945251.1  sister chromatid cohesion protein PDS5 homolog B isoform X4

      UniProtKB/TrEMBL
      A0A8I6GK18, D3ZXE2
      Conserved Domains (3) summary
      PTZ00121
      Location:1196 → 1432
      PTZ00121; MAEBL; Provisional
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    2. XM_039089324.1 → XP_038945252.1  sister chromatid cohesion protein PDS5 homolog B isoform X4

      UniProtKB/TrEMBL
      A0A8I6GK18, D3ZXE2
      Conserved Domains (3) summary
      PTZ00121
      Location:1196 → 1432
      PTZ00121; MAEBL; Provisional
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    3. XM_063271248.1 → XP_063127318.1  sister chromatid cohesion protein PDS5 homolog B isoform X4

      UniProtKB/TrEMBL
      A0A8I6GK18, D3ZXE2

    4. XM_039089322.2 → XP_038945250.1  sister chromatid cohesion protein PDS5 homolog B isoform X4

      UniProtKB/TrEMBL
      A0A8I6GK18, D3ZXE2
      Related
      ENSRNOP00000092974.1, ENSRNOT00000112327.2
      Conserved Domains (3) summary
      PTZ00121
      Location:1196 → 1432
      PTZ00121; MAEBL; Provisional
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    5. XM_039089319.1 → XP_038945247.1  sister chromatid cohesion protein PDS5 homolog B isoform X1

      UniProtKB/Swiss-Prot
      Q5G5U1, Q5G6V7, Q5G6V8, Q5PY35, Q5PY36, Q6TRW4
      UniProtKB/TrEMBL
      D3ZXE2
      Conserved Domains (3) summary
      PTZ00121
      Location:1196 → 1431
      PTZ00121; MAEBL; Provisional
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    6. XM_039089325.1 → XP_038945253.1  sister chromatid cohesion protein PDS5 homolog B isoform X5

      UniProtKB/TrEMBL
      D3ZXE2
      Related
      ENSRNOP00000041874.7, ENSRNOT00000040830.7
      Conserved Domains (3) summary
      PTZ00121
      Location:1196 → 1395
      PTZ00121; MAEBL; Provisional
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    7. XM_039089320.1 → XP_038945248.1  sister chromatid cohesion protein PDS5 homolog B isoform X2

      UniProtKB/TrEMBL
      D3ZXE2
      Conserved Domains (3) summary
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      pfam05793
      Location:1175 → 1417
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    8. XM_039089321.1 → XP_038945249.1  sister chromatid cohesion protein PDS5 homolog B isoform X3

      UniProtKB/TrEMBL
      D3ZXE2
      Conserved Domains (3) summary
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      pfam05793
      Location:1175 → 1416
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    9. XM_039089328.1 → XP_038945256.1  sister chromatid cohesion protein PDS5 homolog B isoform X6

      UniProtKB/TrEMBL
      A0A8I6GAU9, D3ZXE2
      Conserved Domains (3) summary
      sd00044
      Location:240 → 261
      HEAT; HEAT repeat [structural motif]
      pfam05793
      Location:1175 → 1396
      TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
      cd19953
      Location:31 → 661
      PDS5; Sister chromatid cohesion protein PDS5

    RNA

    1. XR_010056381.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6TRW4.2 GenPept UniProtKB/Swiss-Prot:Q6TRW4

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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