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    PCGF5 polycomb group ring finger 5 [ Homo sapiens (human) ]

    Gene ID: 84333, updated on 2-Nov-2024

    Summary

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    Official Symbol
    PCGF5provided by HGNC
    Official Full Name
    polycomb group ring finger 5provided by HGNC
    Primary source
    HGNC:HGNC:28264
    See related
    Ensembl:ENSG00000180628 MIM:617407; AllianceGenome:HGNC:28264
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RNF159
    Summary
    Predicted to enable histone H2AK119 ubiquitin ligase activity. Acts upstream of or within positive regulation of transcription by RNA polymerase II. Located in Golgi apparatus; centrosome; and nucleoplasm. Part of PcG protein complex. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in thyroid (RPKM 14.7), adrenal (RPKM 12.4) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See PCGF5 in Genome Data Viewer
    Location:
    10q23.32
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (91156219..91284337)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (92039909..92167660)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (92922750..93044094)

    Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902481 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2602 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2603 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2604 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:92923911-92924447 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:92932029-92932262 Neighboring gene uncharacterized LOC124902480 Neighboring gene nudix hydrolase 9 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2605 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3762 Neighboring gene Sharpr-MPRA regulatory region 216 Neighboring gene ReSE screen-validated silencer GRCh37_chr10:93007586-93007768 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:93044145-93044720 Neighboring gene HECTD2 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3763 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2607 Neighboring gene MPRA-validated peak1048 silencer Neighboring gene HECT domain E3 ubiquitin protein ligase 2 Neighboring gene ribosomal protein S27 pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Observational study of gene-disease association. (HuGE Navigator)
      Title: A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease.
    Submit: New GeneRIF Correction

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    Variation

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    See Variation Viewer (GRCh37.p13)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC16202

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables histone H2AK119 ubiquitin ligase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in random inactivation of X chromosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    		  
    part_of PRC1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of PcG protein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    colocalizes_with X chromosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in centrosome IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    polycomb group RING finger protein 5
    Names
    RING finger protein 159
    ring finger protein (C3HC4 type) 159

    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_001256549.2 → NP_001243478.1  polycomb group RING finger protein 5

      See identical proteins and their annotated locations for NP_001243478.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 4 all encode the same protein.
      Source sequence(s)
      AC026227, AK303014, BQ420347
      Consensus CDS
      CCDS7413.1
      UniProtKB/Swiss-Prot
      B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
      Related
      ENSP00000445704.1, ENST00000543648.5
      Conserved Domains (3) summary
      TIGR00599
      Location:8 → 116
      rad18; DNA repair protein rad18
      cd16737
      Location:16 → 57
      RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
      cd17084
      Location:136 → 256
      RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

    2. NM_001257101.2 → NP_001244030.1  polycomb group RING finger protein 5

      See identical proteins and their annotated locations for NP_001244030.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR compared to variant 1. Variants 1, 2 and 4 all encode the same protein.
      Source sequence(s)
      AC026227, AL731553, BC051845, BQ420347
      Consensus CDS
      CCDS7413.1
      UniProtKB/Swiss-Prot
      B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
      Related
      ENSP00000479492.1, ENST00000614189.4
      Conserved Domains (3) summary
      TIGR00599
      Location:8 → 116
      rad18; DNA repair protein rad18
      cd16737
      Location:16 → 57
      RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
      cd17084
      Location:136 → 256
      RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

    3. NM_032373.5 → NP_115749.2  polycomb group RING finger protein 5

      See identical proteins and their annotated locations for NP_115749.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript. Variants 1, 2 and 4 all encode the same protein.
      Source sequence(s)
      AC026227, AL832496, BI464238, BQ420347
      Consensus CDS
      CCDS7413.1
      UniProtKB/Swiss-Prot
      B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
      Related
      ENSP00000337500.5, ENST00000336126.6
      Conserved Domains (3) summary
      TIGR00599
      Location:8 → 116
      rad18; DNA repair protein rad18
      cd16737
      Location:16 → 57
      RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
      cd17084
      Location:136 → 256
      RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

    RNA

    1. NR_046310.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has an alternate 3' exon, and lacks all but the first two exons, compared to variant 1. This variant is represented as non-coding because it lacks a large portion of the coding region, as found in variant 1.
      Source sequence(s)
      BC007377, BI464238, BY994354
      Related
      ENST00000490164.1

    2. NR_046435.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AL731553, BC007377

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

      Range
      91156219..91284337
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017016776.3 → XP_016872265.1  polycomb group RING finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
      Conserved Domains (3) summary
      TIGR00599
      Location:8 → 116
      rad18; DNA repair protein rad18
      cd16737
      Location:16 → 57
      RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
      cd17084
      Location:136 → 256
      RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

    2. XM_017016777.3 → XP_016872266.1  polycomb group RING finger protein 5 isoform X2

      Conserved Domains (3) summary
      TIGR00599
      Location:8 → 116
      rad18; DNA repair protein rad18
      cd16737
      Location:16 → 57
      RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
      cd17084
      Location:136 → 236
      RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

    3. XM_047425843.1 → XP_047281799.1  polycomb group RING finger protein 5 isoform X2

    4. XM_047425846.1 → XP_047281802.1  polycomb group RING finger protein 5 isoform X3

    5. XM_047425849.1 → XP_047281805.1  polycomb group RING finger protein 5 isoform X4

    6. XM_047425845.1 → XP_047281801.1  polycomb group RING finger protein 5 isoform X2

    7. XM_047425848.1 → XP_047281804.1  polycomb group RING finger protein 5 isoform X3

    8. XM_011540271.4 → XP_011538573.1  polycomb group RING finger protein 5 isoform X1

      See identical proteins and their annotated locations for XP_011538573.1

      UniProtKB/Swiss-Prot
      B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0
      Conserved Domains (3) summary
      TIGR00599
      Location:8 → 116
      rad18; DNA repair protein rad18
      cd16737
      Location:16 → 57
      RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
      cd17084
      Location:136 → 256
      RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

    9. XM_047425844.1 → XP_047281800.1  polycomb group RING finger protein 5 isoform X2

    10. XM_047425847.1 → XP_047281803.1  polycomb group RING finger protein 5 isoform X3

    11. XM_011540272.3 → XP_011538574.1  polycomb group RING finger protein 5 isoform X2

      See identical proteins and their annotated locations for XP_011538574.1

      Conserved Domains (3) summary
      TIGR00599
      Location:8 → 116
      rad18; DNA repair protein rad18
      cd16737
      Location:16 → 57
      RING-HC_PCGF5; RING finger found in polycomb group RING finger protein 5 (PCGF5) and similar proteins
      cd17084
      Location:136 → 236
      RAWUL_PCGF5; RING finger- and WD40-associated ubiquitin-like (RAWUL) domain found in polycomb group RING finger protein 5 (PCGF5) and similar proteins

    12. XM_006718030.2 → XP_006718093.1  polycomb group RING finger protein 5 isoform X3

      Conserved Domains (1) summary
      pfam16207
      Location:89 → 185
      RAWUL; RAWUL domain RING finger- and WD40-associated ubiquitin-like

    13. XM_017016778.2 → XP_016872267.1  polycomb group RING finger protein 5 isoform X4

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060934.1 Alternate T2T-CHM13v2.0

      Range
      92039909..92167660
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054366934.1 → XP_054222909.1  polycomb group RING finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0

    2. XM_054366937.1 → XP_054222912.1  polycomb group RING finger protein 5 isoform X2

    3. XM_054366936.1 → XP_054222911.1  polycomb group RING finger protein 5 isoform X2

    4. XM_054366940.1 → XP_054222915.1  polycomb group RING finger protein 5 isoform X3

    5. XM_054366945.1 → XP_054222920.1  polycomb group RING finger protein 5 isoform X4

    6. XM_054366939.1 → XP_054222914.1  polycomb group RING finger protein 5 isoform X2

    7. XM_054366943.1 → XP_054222918.1  polycomb group RING finger protein 5 isoform X3

    8. XM_054366935.1 → XP_054222910.1  polycomb group RING finger protein 5 isoform X2

    9. XM_054366941.1 → XP_054222916.1  polycomb group RING finger protein 5 isoform X3

    10. XM_054366944.1 → XP_054222919.1  polycomb group RING finger protein 5 isoform X4

    11. XM_054366933.1 → XP_054222908.1  polycomb group RING finger protein 5 isoform X1

      UniProtKB/Swiss-Prot
      B7Z892, D3DR33, Q6PK47, Q86SE9, Q86TD0

    12. XM_054366938.1 → XP_054222913.1  polycomb group RING finger protein 5 isoform X2

    13. XM_054366942.1 → XP_054222917.1  polycomb group RING finger protein 5 isoform X3

    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q86SE9.1 GenPept UniProtKB/Swiss-Prot:Q86SE9

    Gene LinkOut

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