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

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

    Summary

    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
    NEW
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    Genomic context

    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

    Expression

    • Project title: 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    HIV-1 interactions

    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

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    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 
    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

    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)

    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_006713.4NP_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:68115
      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_047416661.1XP_047272617.1  activated RNA polymerase II transcriptional coactivator p15 isoform X1

      UniProtKB/Swiss-Prot
      P53999, Q96L29
      UniProtKB/TrEMBL
      Q59G24, Q6IBA2
      Related
      ENSP00000426850.1, ENST00000515355.5
    2. XM_011513944.4XP_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:68115
      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)