Format

Send to:

Choose Destination

Links from PubMed

    • Showing Current items.

    SUPT5H SPT5 homolog, DSIF elongation factor subunit [ Homo sapiens (human) ]

    Gene ID: 6829, updated on 22-Apr-2017
    Official Symbol
    SUPT5Hprovided by HGNC
    Official Full Name
    SPT5 homolog, DSIF elongation factor subunitprovided by HGNC
    Primary source
    HGNC:HGNC:11469
    See related
    Ensembl:ENSG00000196235 MIM:602102; Vega:OTTHUMG00000182973
    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
    SPT5; SPT5H; Tat-CT1
    Orthologs
    Location:
    19q13.2
    Exon count:
    30
    Annotation release Status Assembly Chr Location
    108 current GRCh38.p7 (GCF_000001405.33) 19 NC_000019.10 (39445546..39476670)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (39936186..39967310)

    Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene ribosomal protein S16 Neighboring gene interleukin-like Neighboring gene translocase of inner mitochondrial membrane 50 Neighboring gene delta like canonical Notch ligand 3

    • 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 Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Protein interactions

    Protein Gene Interaction Pubs
    Tat tat SPT5 associates with the HIV-1 Tat cofactor Tat-SF1 and the RNA polymerase II holoenzyme and stimulates Tat-mediated transcriptional activation of the HIV-1 LTR promoter PubMed
    tat HIV-1 Tat induces the phosphorylation of the SPT5 CTR1 domain (amino acids 754-817) by CDK9/P-TEFb PubMed
    tat The SPT5/SPT4 complex, DSIF, associates with the HIV-1 transcription elongation complex (TEC) and SPT5 cooperates with HIV-1 Tat by preventing premature RNA release from the TEC at terminator sequences and reducing polymerase pausing at arrest sites PubMed

    Go to the HIV-1, Human Interaction Database

    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • FLJ34157

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    RNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    chromatin binding IEA
    Inferred from Electronic Annotation
    more info
     
    enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein heterodimerization activity IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    7-methylguanosine mRNA capping TAS
    Traceable Author Statement
    more info
     
    DNA-templated transcription, elongation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell cycle NAS
    Non-traceable Author Statement
    more info
    PubMed 
    chromatin remodeling NAS
    Non-traceable Author Statement
    more info
    PubMed 
    negative regulation of DNA-templated transcription, elongation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    negative regulation of mRNA polyadenylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of transcription from RNA polymerase II promoter IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of DNA-templated transcription, elongation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of macroautophagy IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of transcription from RNA polymerase II promoter IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of viral transcription TAS
    Traceable Author Statement
    more info
     
    response to organic substance TAS
    Traceable Author Statement
    more info
    PubMed 
    single stranded viral RNA replication via double stranded DNA intermediate NAS
    Non-traceable Author Statement
    more info
    PubMed 
    transcription elongation from RNA polymerase II promoter IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transcription elongation from RNA polymerase II promoter TAS
    Traceable Author Statement
    more info
     
    transcription from RNA polymerase II promoter TAS
    Traceable Author Statement
    more info
     
    Component Evidence Code Pubs
    DSIF complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleoplasm IDA
    Inferred from Direct Assay
    more info
     
    nucleoplasm TAS
    Traceable Author Statement
    more info
     
    nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Preferred Names
    transcription elongation factor SPT5
    Names
    DRB sensitivity-inducing factor 160 kDa subunit
    DRB sensitivity-inducing factor large subunit
    DSIF large subunit
    DSIF p160
    Tat-cotransactivator 1 protein
    hSPT5
    suppressor of Ty 5 homolog

    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_001111020.2NP_001104490.1  transcription elongation factor SPT5 isoform a

      See identical proteins and their annotated locations for NP_001104490.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, and 5 all encode the same isoform (a).
      Source sequence(s)
      AF040253, DB097498
      Consensus CDS
      CCDS12536.1
      UniProtKB/Swiss-Prot
      O00267
      Related
      ENSP00000404029.4, ENST00000432763.6
      Conserved Domains (12) summary
      PRK08559
      Location:175316
      nusG; transcription antitermination protein NusG; Validated
      cd09888
      Location:178265
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:334965
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:276313
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06082
      Location:420470
      KOW_Spt5_2; KOW domain of Spt5, repeat 2
      cd06083
      Location:471521
      KOW_Spt5_3; KOW domain of Spt5, repeat 3
      cd06084
      Location:597639
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      cd06085
      Location:702751
      KOW_Spt5_5; KOW domain of Spt5, repeat 5
      cd06086
      Location:10281084
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam04731
      Location:847976
      Caudal_act; Caudal like protein activation region
      pfam11942
      Location:93171
      Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
      pfam12815
      Location:766822
      CTD; Spt5 C-terminal nonapeptide repeat binding Spt4
    2. NM_001130824.1NP_001124296.1  transcription elongation factor SPT5 isoform a

      See identical proteins and their annotated locations for NP_001124296.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR compared to variant 1. Variants 1, 2, 3, and 5 all encode the same isoform (a).
      Source sequence(s)
      AF040253, BC024203, DB097498, Y12790
      Consensus CDS
      CCDS12536.1
      UniProtKB/Swiss-Prot
      O00267
      Conserved Domains (12) summary
      PRK08559
      Location:175316
      nusG; transcription antitermination protein NusG; Validated
      cd09888
      Location:178265
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:334965
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:276313
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06082
      Location:420470
      KOW_Spt5_2; KOW domain of Spt5, repeat 2
      cd06083
      Location:471521
      KOW_Spt5_3; KOW domain of Spt5, repeat 3
      cd06084
      Location:597639
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      cd06085
      Location:702751
      KOW_Spt5_5; KOW domain of Spt5, repeat 5
      cd06086
      Location:10281084
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam04731
      Location:847976
      Caudal_act; Caudal like protein activation region
      pfam11942
      Location:93171
      Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
      pfam12815
      Location:766822
      CTD; Spt5 C-terminal nonapeptide repeat binding Spt4
    3. NM_001130825.1NP_001124297.1  transcription elongation factor SPT5 isoform b

      See identical proteins and their annotated locations for NP_001124297.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs in the 5' UTR and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 4 and 6 encode the same isoform (b).
      Source sequence(s)
      AB209257, AF040253, DB097498
      Consensus CDS
      CCDS46072.1
      UniProtKB/Swiss-Prot
      O00267
      Related
      ENSP00000384505.2, ENST00000402194.6
      Conserved Domains (12) summary
      PRK08559
      Location:171312
      nusG; transcription antitermination protein NusG; Validated
      cd09888
      Location:174261
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:330961
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:272309
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06082
      Location:416466
      KOW_Spt5_2; KOW domain of Spt5, repeat 2
      cd06083
      Location:467517
      KOW_Spt5_3; KOW domain of Spt5, repeat 3
      cd06084
      Location:593635
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      cd06085
      Location:698747
      KOW_Spt5_5; KOW domain of Spt5, repeat 5
      cd06086
      Location:10241080
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam04731
      Location:843972
      Caudal_act; Caudal like protein activation region
      pfam11942
      Location:75167
      Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
      pfam12815
      Location:762818
      CTD; Spt5 C-terminal nonapeptide repeat binding Spt4
    4. NM_001319990.1NP_001306919.1  transcription elongation factor SPT5 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) differs in the 5' UTR compared to variant 1. Variants Variants 1, 2, 3, and 5 all encode the same isoform (a).
      Source sequence(s)
      AF040253, DB097498, U56402, Y12790
      Consensus CDS
      CCDS12536.1
      UniProtKB/Swiss-Prot
      O00267
      Conserved Domains (12) summary
      PRK08559
      Location:175316
      nusG; transcription antitermination protein NusG; Validated
      cd09888
      Location:178265
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:334965
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:276313
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06082
      Location:420470
      KOW_Spt5_2; KOW domain of Spt5, repeat 2
      cd06083
      Location:471521
      KOW_Spt5_3; KOW domain of Spt5, repeat 3
      cd06084
      Location:597639
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      cd06085
      Location:702751
      KOW_Spt5_5; KOW domain of Spt5, repeat 5
      cd06086
      Location:10281084
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam04731
      Location:847976
      Caudal_act; Caudal like protein activation region
      pfam11942
      Location:93171
      Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
      pfam12815
      Location:766822
      CTD; Spt5 C-terminal nonapeptide repeat binding Spt4
    5. NM_001319991.1NP_001306920.1  transcription elongation factor SPT5 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (6) differs in the 5' UTR and lacks an alternate in-frame exon compared to variant 1. The resulting isoform (b) has the same N- and C-termini but is shorter compared to isoform a. Variants 4 and 6 encode the same isoform (b).
      Source sequence(s)
      AB209257, AF040253, DB097498, U56402
      Consensus CDS
      CCDS46072.1
      UniProtKB/Swiss-Prot
      O00267
      Conserved Domains (12) summary
      PRK08559
      Location:171312
      nusG; transcription antitermination protein NusG; Validated
      cd09888
      Location:174261
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:330961
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:272309
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06082
      Location:416466
      KOW_Spt5_2; KOW domain of Spt5, repeat 2
      cd06083
      Location:467517
      KOW_Spt5_3; KOW domain of Spt5, repeat 3
      cd06084
      Location:593635
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      cd06085
      Location:698747
      KOW_Spt5_5; KOW domain of Spt5, repeat 5
      cd06086
      Location:10241080
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam04731
      Location:843972
      Caudal_act; Caudal like protein activation region
      pfam11942
      Location:75167
      Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
      pfam12815
      Location:762818
      CTD; Spt5 C-terminal nonapeptide repeat binding Spt4
    6. NM_003169.3NP_003160.2  transcription elongation factor SPT5 isoform a

      See identical proteins and their annotated locations for NP_003160.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a). Variants 1, 2, 3, and 5 all encode the same isoform (a).
      Source sequence(s)
      AF040253, BP199253
      Consensus CDS
      CCDS12536.1
      UniProtKB/Swiss-Prot
      O00267
      Related
      ENSP00000469090.1, OTTHUMP00000270778, ENST00000598725.5, OTTHUMT00000464925
      Conserved Domains (12) summary
      PRK08559
      Location:175316
      nusG; transcription antitermination protein NusG; Validated
      cd09888
      Location:178265
      NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
      COG5164
      Location:334965
      SPT5; Transcription elongation factor [Transcription]
      cd06081
      Location:276313
      KOW_Spt5_1; KOW domain of Spt5, repeat 1
      cd06082
      Location:420470
      KOW_Spt5_2; KOW domain of Spt5, repeat 2
      cd06083
      Location:471521
      KOW_Spt5_3; KOW domain of Spt5, repeat 3
      cd06084
      Location:597639
      KOW_Spt5_4; KOW domain of Spt5, repeat 4
      cd06085
      Location:702751
      KOW_Spt5_5; KOW domain of Spt5, repeat 5
      cd06086
      Location:10281084
      KOW_Spt5_6; KOW domain of Spt5, repeat 6
      pfam04731
      Location:847976
      Caudal_act; Caudal like protein activation region
      pfam11942
      Location:93171
      Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
      pfam12815
      Location:766822
      CTD; Spt5 C-terminal nonapeptide repeat binding Spt4

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108 details...Open this link in a new tab

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

    Reference GRCh38.p7 Primary Assembly

    Genomic

    1. NC_000019.10 Reference GRCh38.p7 Primary Assembly

      Range
      39445546..39476670
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017027174.1XP_016882663.1  transcription elongation factor SPT5 isoform X1

    Alternate CHM1_1.1

    Genomic

    1. NC_018930.2 Alternate CHM1_1.1

      Range
      39936824..39967943
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Support Center