Format

Send to:

Choose Destination

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

Gene ID: 6829, updated on 3-Jun-2018
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
Expression
Ubiquitous expression in testis (RPKM 64.5), bone marrow (RPKM 32.4) and 25 other tissues See more
Orthologs
See SUPT5H in Genome Data Viewer
Location:
19q13.2
Exon count:
30
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 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 pleckstrin homology and RhoGEF domain containing G2 Neighboring gene ribosomal protein S16 Neighboring gene small nucleolar RNA, C/D box 175 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 HDA 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
 
mRNA processing IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
negative regulation of DNA-templated transcription, elongation IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of DNA-templated transcription, elongation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of mRNA polyadenylation IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
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 by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 
transcription elongation from RNA polymerase II promoter IBA
Inferred from Biological aspect of Ancestor
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 IMP
Inferred from Mutant Phenotype
more info
PubMed 
transcription elongation from RNA polymerase II promoter TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
DSIF complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
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 (5) summary
    cd09888
    Location:178265
    NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
    cd06081
    Location:276313
    KOW_Spt5_1; KOW domain of Spt5, repeat 1
    cd06086
    Location:10281084
    KOW_Spt5_6; KOW domain of Spt5, repeat 6
    pfam11942
    Location:75171
    Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
    cl26303
    Location:334965
    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 (5) summary
    cd09888
    Location:178265
    NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
    cd06081
    Location:276313
    KOW_Spt5_1; KOW domain of Spt5, repeat 1
    cd06086
    Location:10281084
    KOW_Spt5_6; KOW domain of Spt5, repeat 6
    pfam11942
    Location:75171
    Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
    cl26303
    Location:334965
    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 (5) summary
    cd09888
    Location:178265
    NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
    cd06081
    Location:276313
    KOW_Spt5_1; KOW domain of Spt5, repeat 1
    cd06086
    Location:10281084
    KOW_Spt5_6; KOW domain of Spt5, repeat 6
    pfam11942
    Location:75171
    Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
    cl26303
    Location:334965
    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 (5) summary
    cd09888
    Location:178265
    NGN_Euk; Eukaryotic N-Utilization Substance G (NusG) N-terminal (NGN) domain, including plant KTF1 (KOW domain-containing Transcription Factor 1)
    cd06081
    Location:276313
    KOW_Spt5_1; KOW domain of Spt5, repeat 1
    cd06086
    Location:10281084
    KOW_Spt5_6; KOW domain of Spt5, repeat 6
    pfam11942
    Location:75171
    Spt5_N; Spt5 transcription elongation factor, acidic N-terminal
    cl26303
    Location:334965
    CTD; Spt5 C-terminal nonapeptide repeat binding Spt4

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p12 Primary Assembly

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

mRNA and Protein(s)

  1. XM_017027174.2XP_016882663.1  transcription elongation factor SPT5 isoform X1

Support Center