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

Summary

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: mouse all
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Genomic context

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_000008.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
A ubiquitous disordered protein interaction module orchestrates transcription elongation.
Title: A ubiquitous disordered protein interaction module orchestrates transcription elongation.
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.
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.
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.
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.
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.
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.
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.
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)

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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D8S2054 (e-PCR)
- UniSTS:62475

RH66562 (e-PCR)
- UniSTS:91733

D3S4495 (e-PCR)
- UniSTS:474550

Readthrough LYPLA1-TCEA1

Readthrough gene: LYPLA1-TCEA1, Included gene: LYPLA1

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)

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
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

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
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