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    SUB1 SUB1 regulator of transcription [ Homo sapiens (human) ]

    Gene ID: 10923, updated on 3-Nov-2024

    Summary

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    Official Symbol
    SUB1provided by HGNC
    Official Full Name
    SUB1 regulator of transcriptionprovided by HGNC
    Primary source
    HGNC:HGNC:19985
    See related
    Ensembl:ENSG00000113387 MIM:600503; AllianceGenome:HGNC:19985
    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
    P15; PC4; p14
    Summary
    Enables several functions, including DNA binding activity; identical protein binding activity; and transcription coactivator activity. Involved in several processes, including RNA polymerase II promoter clearance; negative regulation of DNA duplex unwinding; and regulation of nucleobase-containing compound metabolic process. Located in nucleolus and nucleoplasm. Part of transcription regulator complex. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in brain (RPKM 41.5), fat (RPKM 34.4) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See SUB1 in Genome Data Viewer
    Location:
    5p13.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (32585557..32604079)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (32699227..32717759)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (32585663..32604185)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene zinc finger RNA binding protein Neighboring gene microRNA 579 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:32443940-32444497 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15958 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr5:32501369-32502015 Neighboring gene uncharacterized LOC124900954 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:32511632-32512132 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22445 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22446 Neighboring gene TMEM183A pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22447 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22448 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22449 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22450 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22451 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:32576632-32576802 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22452 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15959 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15960 Neighboring gene long intergenic non-protein coding RNA 2061 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:32653566-32654765 Neighboring gene Sharpr-MPRA regulatory region 158 Neighboring gene natriuretic peptide receptor 3 Neighboring gene NPR3 intron CAGE-defined low expression enhancer Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:32767828-32769027

    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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    Related articles in PubMed

    1. Knockdown of PC4 increases chemosensitivity of Oxaliplatin in triple negative breast cancer by suppressing mTOR pathway. Wang Q, et al. Biochem Biophys Res Commun, 2021 Mar 12. PMID 33524870
    2. Phosphorylation-dependent association of human chromatin protein PC4 to linker histone H1 regulates genome organization and transcription. Mustafi P, et al. Nucleic Acids Res, 2022 Jun 24. PMID 35670677, Free PMC Article
    3. Human transcriptional coactivator PC4 stimulates DNA end joining and activates DSB repair activity. Batta K, et al. J Mol Biol, 2009 Jan 23. PMID 19038270
    4. The intrinsically unstructured domain of PC4 modulates the activity of the structured core through inter- and intramolecular interactions. Jonker HR, et al. Biochemistry, 2006 Apr 18. PMID 16605275
    5. Sub1/PC4 a chromatin associated protein with multiple functions in transcription. Conesa C, et al. RNA Biol, 2010 May-Jun. PMID 20305379

    See all (181) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SUB1 promotes colorectal cancer metastasis by activating NF-kappaB signaling via UBR5-mediated ubiquitination of UBXN1.
      Title: SUB1 promotes colorectal cancer metastasis by activating NF-κB signaling via UBR5-mediated ubiquitination of UBXN1.
    2. HMGB3 and SUB1 Bind to and Facilitate the Repair of N[2]-Alkylguanine Lesions in DNA.
      Title: HMGB3 and SUB1 Bind to and Facilitate the Repair of N(2)-Alkylguanine Lesions in DNA.
    3. PC4 promotes bladder cancer progression and stemness by directly interacting with Sp1 to transcriptionally activate the Wnt5a/beta-catenin pathway.
      Title: PC4 promotes bladder cancer progression and stemness by directly interacting with Sp1 to transcriptionally activate the Wnt5a/β-catenin pathway.
    4. Periodic changes of cyclin D1 mRNA stability are regulated by PC4 modifications in the cell cycle.
      Title: Periodic changes of cyclin D1 mRNA stability are regulated by PC4 modifications in the cell cycle.
    5. Phosphorylation-dependent association of human chromatin protein PC4 to linker histone H1 regulates genome organization and transcription.
      Title: Phosphorylation-dependent association of human chromatin protein PC4 to linker histone H1 regulates genome organization and transcription.
    6. CircVCAN/SUB1 up-regulates MYC/HSP90beta to enhance the proliferation and migration of glioma cells.
      Title: CircVCAN/SUB1 up-regulates MYC/HSP90β to enhance the proliferation and migration of glioma cells.
    7. The Transcription Factor SUB1 Is a Master Regulator of the Macrophage TLR Response in Atherosclerosis.
      Title: The Transcription Factor SUB1 Is a Master Regulator of the Macrophage TLR Response in Atherosclerosis.
    8. Chromatin Protein PC4 Orchestrates B Cell Differentiation by Collaborating with IKAROS and IRF4.
      Title: Chromatin Protein PC4 Orchestrates B Cell Differentiation by Collaborating with IKAROS and IRF4.
    9. Knockdown of PC4 increases chemosensitivity of Oxaliplatin in triple negative breast cancer by suppressing mTOR pathway.
      Title: Knockdown of PC4 increases chemosensitivity of Oxaliplatin in triple negative breast cancer by suppressing mTOR pathway.
    10. PC4 is essential for genomic integrity and autophagy regulation.
      Title: Nonhistone human chromatin protein PC4 is critical for genomic integrity and negatively regulates autophagy.
    Submit: New GeneRIF Correction See all GeneRIFs (38)

    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 variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of SUB1 PubMed
    Knockdown of SUB1 homolog by siRNA inhibits the early stages of HIV-1 replication in 293T cells infected with VSV-G pseudotyped HIV-1 PubMed

    Protein interactions

    Protein Gene Interaction Pubs
    Rev rev HIV-1 Rev interacting protein, SUB1 homolog (positive cofactor 4), is identified by the in-vitro binding experiments involving cytosolic or nuclear extracts from HeLa cells PubMed
    Tat tat Through amino acids 22-91, PC4 binds to the basic TAR binding domain of HIV-1 Tat (amino acids 49-57) and enhances activation of the HIV-1 LTR promoter in a Tat dependent manner PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC102747

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding HDA PubMed 
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables single-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coactivator activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in RNA polymerase II promoter clearance IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of DNA duplex unwinding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of DNA metabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of transcription initiation by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular exosome HDA PubMed 
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		  
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription regulator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of transcription regulator complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    activated RNA polymerase II transcriptional coactivator p15
    Names
    SUB1 homolog, transcriptional regulator
    activated RNA polymerase II transcription cofactor 4
    positive cofactor 4

    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_006713.4 → NP_006704.3  activated RNA polymerase II transcriptional coactivator p15

      See identical proteins and their annotated locations for NP_006704.3

      Status: VALIDATED

      Source sequence(s)
      AC074134, BC010537, BC071655, BX472106
      Consensus CDS
      CCDS3897.1
      UniProtKB/Swiss-Prot
      P53999, Q96L29
      UniProtKB/TrEMBL
      Q59G24, Q6IBA2
      Related
      ENSP00000265073.4, ENST00000265073.9
      Conserved Domains (1) summary
      pfam02229
      Location:68 → 115
      PC4; Transcriptional Coactivator p15 (PC4)

    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_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      32585557..32604079
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047416661.1 → XP_047272617.1  activated RNA polymerase II transcriptional coactivator p15 isoform X1

      UniProtKB/Swiss-Prot
      P53999, Q96L29
      UniProtKB/TrEMBL
      Q6IBA2
      Related
      ENSP00000426850.1, ENST00000515355.5

    2. XM_011513944.4 → XP_011512246.1  activated RNA polymerase II transcriptional coactivator p15 isoform X1

      See identical proteins and their annotated locations for XP_011512246.1

      UniProtKB/Swiss-Prot
      P53999, Q96L29
      UniProtKB/TrEMBL
      Q59G24, Q6IBA2
      Conserved Domains (1) summary
      pfam02229
      Location:68 → 115
      PC4; Transcriptional Coactivator p15 (PC4)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      32699227..32717759
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P53999.3 GenPept UniProtKB/Swiss-Prot:P53999

    Gene LinkOut

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

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