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TCEA1 transcription elongation factor A1 [ Homo sapiens (human) ]

Gene ID: 6917, updated on 28-Oct-2024

Summary

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Official Symbol
TCEA1provided by HGNC
Official Full Name
transcription elongation factor A1provided by HGNC
Primary source
HGNC:HGNC:11612
See related
Ensembl:ENSG00000187735 MIM:601425; AllianceGenome:HGNC:11612
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
SII; TCEA; TF2S; GTF2S; TFIIS
Summary
Predicted to enable DNA binding activity; translation elongation factor activity; and zinc ion binding activity. Predicted to be involved in DNA-templated transcription and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within erythrocyte differentiation and positive regulation of DNA-templated transcription. Located in nucleolus and nucleoplasm. Part of transcription factor TFIID complex. [provided by Alliance of Genome Resources, Oct 2024]
Expression
Ubiquitous expression in thyroid (RPKM 66.3), lymph node (RPKM 39.6) and 25 other tissues See more
Orthologs
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Genomic context

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See TCEA1 in Genome Data Viewer
Location:
8q11.23
Exon count:
12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (53966556..54022448, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (54343951..54399849, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (54879116..54935008, complement)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene regulator of G protein signaling 20 Neighboring gene RPS27A pseudogene 13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27364 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27365 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27366 Neighboring gene RNA, U6 small nuclear 1331, pseudogene Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:54856969-54858168 Neighboring gene LYPLA1-TCEA1 readthrough Neighboring gene ESF1, nucleolar pre-rRNA processing protein, homolog (S. cerevisiae) pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19197 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:54934747-54935540 Neighboring gene Uncharacterized LOC133039971 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19198 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:54935541-54936332 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:54942814-54943544 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:54943545-54944276 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:54958280-54958473 Neighboring gene lysophospholipase 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27370 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:54997169-54998116 Neighboring gene CRIPTO pseudogene 5 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27371 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19199 Neighboring gene MPRA-validated peak7022 silencer Neighboring gene mitochondrial ribosomal protein L15

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. Elongation Factor TFIIS Prevents Transcription Stress and R-Loop Accumulation to Maintain Genome Stability. Zatreanu D, et al. Mol Cell, 2019 Oct 3. PMID 31519522, Free PMC Article
  2. Transcription elongation factor SII (TCEA) maps to human chromosome 3p22 --> p21.3. DiMarco SP, et al. Genomics, 1996 Aug 15. PMID 8812434
  3. Transcription factor IIS impacts UV-inhibited transcription. Jensen A, et al. DNA Repair (Amst), 2010 Nov 10. PMID 20729154
  4. Transcription elongation factor SII (TFIIS) enables RNA polymerase II to elongate through a block to transcription in a human gene in vitro. Reines D, et al. J Biol Chem, 1989 Jun 25. PMID 2471707
  5. RNA interference against transcription elongation factor SII does not support its role in transcription-coupled nucleotide excision repair. Mackinnon-Roy C, et al. Mutat Res, 2011 Jan 10. PMID 21070792

See all (97) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Human DNA topoisomerase I poisoning causes R loop-mediated genome instability attenuated by transcription factor IIS.
    Title: Human DNA topoisomerase I poisoning causes R loop-mediated genome instability attenuated by transcription factor IIS.
  2. A ubiquitous disordered protein interaction module orchestrates transcription elongation.
    Title: A ubiquitous disordered protein interaction module orchestrates transcription elongation.
  3. A mutant form of TFIIS increased RNAPII pausing and backtracking results in R-loop formation and genome instability.
    Title: Elongation Factor TFIIS Prevents Transcription Stress and R-Loop Accumulation to Maintain Genome Stability.
  4. RNF20, presumably via H2Bub, selectively represses oncogenic genes by interfering with chromatin recruitment of TFIIS, a factor capable of relieving stalled RNA polymerase II. RNF20 inhibits the interaction between TFIIS and the PAF1 complex.
    Title: RNF20 inhibits TFIIS-facilitated transcriptional elongation to suppress pro-oncogenic gene expression.
  5. a role for TFIIS in transcription recovery and re-establishment of the balance between hypo- and hyper-phosphorylated RNAPII after DNA damage repair
    Title: Transcription factor IIS impacts UV-inhibited transcription.
  6. Results indicate that TFIIS is not limiting for the repair of transcription-blocking DNA lesions and thus the present work does not support a role for TFIIS in TC-NER.
    Title: RNA interference against transcription elongation factor SII does not support its role in transcription-coupled nucleotide excision repair.
  7. transcription factor IIF, hepatitis delta antigen, and stimulatory factor II control human RNA polymerase II (RNAP II) pausing and transcript cleavage
    Title: Combinatorial control of human RNA polymerase II (RNAP II) pausing and transcript cleavage by transcription factor IIF, hepatitis delta antigen, and stimulatory factor II.
  8. TFIIS has a role in suppression of transient pausing, which is the most important contribution of TFIIS to elongation from a stall position
    Title: Transcription factors IIF and IIS and nucleoside triphosphate substrates as dynamic probes of the human RNA polymerase II mechanism.
  9. Results provide a model of the RNA polymerase II-transcription elongation factor TFIIS complex from X-ray diffraction data to 3.8 A resolution.
    Title: Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage.
  10. PLAG1 protein is overexpressed in epithelial, myoepithelial, and mesenchymal-like tumor cells in tumors with fusions to CHCHD7 and TCEA1.
    Title: CHCHD7-PLAG1 and TCEA1-PLAG1 gene fusions resulting from cryptic, intrachromosomal 8q rearrangements in pleomorphic salivary gland adenomas.
Submit: New GeneRIF Correction See all GeneRIFs (11)

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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Protein interactions

Protein Gene Interaction Pubs
Tat tat TFIIS synergizes with HIV-1 Tat during transactivation of the HIV-1 LTR promoter PubMed
tat HIV-1 Tat directly interacts with SII (TFIIS) as demonstrated by Tat-affinity column purification PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in positive regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in transcription by RNA polymerase II TAS
Traceable Author Statement
more info
 PubMed 
involved_in transcription elongation by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in nucleolus IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
located_in nucleoplasm TAS
Traceable Author Statement
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of transcription factor TFIID complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of transcription factor TFIID complex IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
transcription elongation factor A protein 1
Names
epididymis secretory sperm binding protein
transcription elongation factor A (SII), 1
transcription elongation factor S-II protein 1
transcription elongation factor TFIIS.o
transcription factor IIS

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_006756.4 → NP_006747.1  transcription elongation factor A protein 1 isoform 1

    See identical proteins and their annotated locations for NP_006747.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    BQ016366, DA021678, DB091231, X62585
    Consensus CDS
    CCDS47858.1
    UniProtKB/Swiss-Prot
    A6NF25, A8K339, P23193, Q15563, Q6FG87
    UniProtKB/TrEMBL
    A0A384MTX4, B7Z4W0
    Related
    ENSP00000428426.2, ENST00000521604.7
    Conserved Domains (1) summary
    TIGR01385
    Location:4 → 301
    TFSII; transcription elongation factor S-II

  2. NM_201437.3 → NP_958845.1  transcription elongation factor A protein 1 isoform 2

    See identical proteins and their annotated locations for NP_958845.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the 5' coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
    Source sequence(s)
    AK297957, BC072460, BQ016366, DA021678, DB091231, X62585
    Consensus CDS
    CCDS47857.1
    UniProtKB/TrEMBL
    B7Z4W0
    Related
    ENSP00000395483.2, ENST00000396401.7
    Conserved Domains (1) summary
    cl02637
    Location:4 → 280
    TFIIS_M; Transcription factor S-II (TFIIS), central domain

RNA

  1. NR_109901.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC072460, BQ016366, BX538034, DA021678, DB091231, X62585
    Related
    ENST00000521086.6

  2. NR_109902.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks several internal exons, compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AK297729, BQ016366, DA021678, DB091231, X62585

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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    53966556..54022448 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    54343951..54399849 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P23193.2 GenPept UniProtKB/Swiss-Prot:P23193

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