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    SUPT4H1 SPT4 homolog, DSIF elongation factor subunit [ Homo sapiens (human) ]

    Gene ID: 6827, updated on 9-Dec-2024

    Summary

    Official Symbol
    SUPT4H1provided by HGNC
    Official Full Name
    SPT4 homolog, DSIF elongation factor subunitprovided by HGNC
    Primary source
    HGNC:HGNC:11467
    See related
    Ensembl:ENSG00000213246 MIM:603555; AllianceGenome:HGNC:11467
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SPT4; SPT4H; SUPT4H; Supt4a
    Summary
    This gene encodes the small subunit of DRB (5,6-dichloro-1-beta-d-ribofuranosylbenzimidazole) sensitivity-inducing factor (DSIF) complex, which regulates mRNA processing and transcription elongation by RNA polymerase II. The encoded protein is localized to the nucleus and interacts with the large subunit (SUPT5H) to form the DSIF complex. Related pseudogenes have been identified on chromosomes 2 and 12. Alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Nov 2012]
    Expression
    Ubiquitous expression in bone marrow (RPKM 34.4), brain (RPKM 26.3) and 25 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See SUPT4H1 in Genome Data Viewer
    Location:
    17q22
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (58345178..58352201, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (59213053..59220076, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (56422539..56429562, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene TSPOAP1, SUPT4H1 and RNF43 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12467 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12468 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8766 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12469 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12470 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12471 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:56412683-56413183 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:56413329-56413870 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12476 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12477 Neighboring gene Sharpr-MPRA regulatory regions 8228 and 8679 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12479 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12478 Neighboring gene MIR142 host genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12480 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12481 Neighboring gene microRNA 142 Neighboring gene microRNA 4736 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8767 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8768 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr17:56430343-56430878 Neighboring gene ring finger protein 43 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12482 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr17:56471542-56472741 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr17:56475825-56476680 Neighboring gene heat shock transcription factor 5 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr17:56523372-56523966 Neighboring gene SET pseudogene 3

    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

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat The SPT5/SPT4 complex, DSIF, associates with the HIV-1 transcription elongation complex (TEC) and are involved in the activation of transcriptional elongation by HIV-1 Tat PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA polymerase II complex binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein heterodimerization activity IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    part_of DSIF complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    part_of DSIF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of DSIF complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    located_in nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in nucleoplasm TAS
    Traceable Author Statement
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    transcription elongation factor SPT4
    Names
    DRB sensitivity-inducing factor 14 kDa subunit
    DSIF p14
    small hSpt4 subunit
    suppressor of Ty 4 homolog 1

    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_003168.3NP_003159.1  transcription elongation factor SPT4

      See identical proteins and their annotated locations for NP_003159.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the shorter transcript and encodes the functional protein.
      Source sequence(s)
      BG026473, U43923
      Consensus CDS
      CCDS11606.1
      UniProtKB/Swiss-Prot
      B2R4X8, D3DTZ4, P63272, Q16550, Q62387, Q6ZP89
      UniProtKB/TrEMBL
      J3QSB9
      Related
      ENSP00000225504.3, ENST00000225504.8
      Conserved Domains (1) summary
      cd07973
      Location:11108
      Spt4; Transcription elongation factor Spt4

    RNA

    1. NR_073470.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AI735030, BP318625, BX331655, U43923
      Related
      ENST00000577396.5

    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_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      58345178..58352201 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      59213053..59220076 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)