TCEA2 Gene (Protein Coding)

Transcription Elongation Factor A2

GC20P064331
GIFtS:
37
The protein encoded by this gene is found in the nucleus, where it functions as an SII class transcription elongation factor. Elongation factors in this class are responsible for releasing RNA polymerase II ternary complexes from transcriptional arrest at template-encoded arresting sites. The encoded protein has been shown to interact with general transcription factor IIB, a ba... See more...

Aliases for TCEA2 Gene

Aliases for TCEA2 Gene

  • Transcription Elongation Factor A2 2 3 5
  • Transcription Elongation Factor S-II Protein 2 3 4
  • Transcription Elongation Factor A Protein 2 3 4
  • Transcription Elongation Factor A (SII), 2 2 3
  • Transcription Elongation Factor TFIIS.L 3 4
  • Testis-Specific S-II 3 4
  • TFIIS 2 3
  • Transcription Elongation Factor TFIIS.1 3
  • TCEA2 5

External Ids for TCEA2 Gene

Previous GeneCards Identifiers for TCEA2 Gene

  • GC20P062572
  • GC20P063367
  • GC20P063420
  • GC20P063414
  • GC20P062158
  • GC20P062681
  • GC20P059422
  • GC20P064049
  • GC20P064184
  • GC20P064207
  • GC20P064212
  • GC20P064257
  • GC20P064050
  • GC20P064073
  • GC20P064074
  • GC20P064112
  • GC20P064134
  • GC20P064160

Summaries for TCEA2 Gene

Entrez Gene Summary for TCEA2 Gene

  • The protein encoded by this gene is found in the nucleus, where it functions as an SII class transcription elongation factor. Elongation factors in this class are responsible for releasing RNA polymerase II ternary complexes from transcriptional arrest at template-encoded arresting sites. The encoded protein has been shown to interact with general transcription factor IIB, a basal transcription factor. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for TCEA2 Gene

TCEA2 (Transcription Elongation Factor A2) is a Protein Coding gene. Diseases associated with TCEA2 include Hypotrichosis-Lymphedema-Telangiectasia Syndrome and Uv-Sensitive Syndrome. Among its related pathways are RNA Polymerase II Transcription Initiation And Promoter Clearance. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and translation elongation factor activity. An important paralog of this gene is TCEA1.

UniProtKB/Swiss-Prot Summary for TCEA2 Gene

  • Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.

Gene Wiki entry for TCEA2 Gene

Additional gene information for TCEA2 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for TCEA2 Gene

Genomics for TCEA2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Download GeneHancer 2017 data
Promoters and enhancers for TCEA2 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around TCEA2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for TCEA2

Top Transcription factor binding sites by QIAGEN in the TCEA2 gene promoter:
  • AhR
  • STAT3

Genomic Locations for TCEA2 Gene

Genomic Locations for TCEA2 Gene
chr20:64,042,350-64,072,347
(GRCh38/hg38)
Size:
29,998 bases
Orientation:
Plus strand
chr20:62,681,189-62,703,700
(GRCh37/hg19)
Size:
22,512 bases
Orientation:
Plus strand

Genomic View for TCEA2 Gene

Genes around TCEA2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
TCEA2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for TCEA2 Gene
GeneLoc Logo Genomic Neighborhood • Exon Structure • Gene Density

RefSeq DNA sequence for TCEA2 Gene

Proteins for TCEA2 Gene

Products:

  1. Antibody
  2. Protein
  3. Assay

  • Protein details for TCEA2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q15560-TCEA2_HUMAN
    Recommended name:
    Transcription elongation factor A protein 2
    Protein Accession:
    Q15560
    Secondary Accessions:
    • B3KNM1
    • Q8TD37
    • Q8TD38

    Protein attributes for TCEA2 Gene

    Size:
    299 amino acids
    Molecular mass:
    33601 Da
    Quaternary structure:
    • Interacts with the basal transcription factor GTF2B. Interacts with REXO1.

    Three dimensional structures from OCA and Proteopedia for TCEA2 Gene

    Alternative splice isoforms for TCEA2 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for TCEA2 Gene

Protein Expression for TCEA2 Gene

See protein expression from ProteomicsDB, MOPED, PaxDb, and MaxQB

Post-translational modifications for TCEA2 Gene

  • Ubiquitination at Lys58
  • Modification sites at PhosphoSitePlus

Other Protein References for TCEA2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for TCEA2 Gene

Domains & Families for TCEA2 Gene

Gene Families for TCEA2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for TCEA2 Gene

InterPro:
Blocks:
  • Transcription elongation factor S-II, N-terminal
ProtoNet:

Suggested Antigen Peptide Sequences for TCEA2 Gene

GenScript: Design optimal peptide antigens:
  • Transcription elongation factor A protein 2 (SII) (Q5ZEZ5_HUMAN)
  • Transcription elongation factor A (SII), 2, isoform CRA_a (Q6IB64_HUMAN)
  • Transcription elongation factor TFIIS.l (TCEA2_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q15560

UniProtKB/Swiss-Prot:

TCEA2_HUMAN :
  • Belongs to the TFS-II family.
Family:
  • Belongs to the TFS-II family.
genes like me logo Genes that share domains with TCEA2: view

Function for TCEA2 Gene

Products:

  1. Animal Model
  2. CRISPR
  3. miRNA
  4. Inhibitory RNA
  5. Clone
  6. Cell Line

Molecular function for TCEA2 Gene

UniProtKB/Swiss-Prot Function:
Necessary for efficient RNA polymerase II transcription elongation past template-encoded arresting sites. The arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by S-II allows the resumption of elongation from the new 3'-terminus.
GENATLAS Biochemistry:
transcription elongation factor A,RNA polymerase II,SII class,testis specific

Phenotypes From GWAS Catalog for TCEA2 Gene

Gene Ontology (GO) - Molecular Function for TCEA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003746 translation elongation factor activity IEA --
GO:0005515 protein binding IPI 16169070
GO:0008270 zinc ion binding IEA --
genes like me logo Genes that share ontologies with TCEA2: view
genes like me logo Genes that share phenotypes with TCEA2: view

Animal Model Products

CRISPR Products

miRNA for TCEA2 Gene

miRTarBase miRNAs that target TCEA2

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TCEA2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TCEA2 Gene

Localization for TCEA2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for TCEA2 Gene

Nucleus.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for TCEA2 gene
Compartment Confidence
nucleus 5
cytoskeleton 2
cytosol 2
extracellular 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Centrosome (3)
  • Nucleoplasm (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for TCEA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0008023 transcription elongation factor complex NAS 8566795
genes like me logo Genes that share ontologies with TCEA2: view

Pathways & Interactions for TCEA2 Gene

PathCards logo

SuperPathways for TCEA2 Gene

SuperPathway Contained pathways
1 RNA Polymerase II Transcription Initiation And Promoter Clearance
Transcription of mRNA
.91
genes like me logo Genes that share pathways with TCEA2: view

Pathways by source for TCEA2 Gene

1 Qiagen pathway for TCEA2 Gene
  • Transcription of mRNA

Gene Ontology (GO) - Biological Process for TCEA2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006354 DNA-templated transcription, elongation NAS 8566795
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006414 translational elongation IEA --
GO:0032784 regulation of DNA-templated transcription, elongation NAS 8566795
genes like me logo Genes that share ontologies with TCEA2: view

No data available for SIGNOR curated interactions for TCEA2 Gene

Drugs & Compounds for TCEA2 Gene

Products:

  1. Drug
No Compound Related Data Available

Transcripts for TCEA2 Gene

Products:

  1. CRISPR
  2. miRNA
  3. Inhibitory RNA
  4. Clone

mRNA/cDNA for TCEA2 Gene

2 REFSEQ mRNAs :
19 NCBI additional mRNA sequence :
17 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for TCEA2

Alternative Splicing Database (ASD) splice patterns (SP) for TCEA2 Gene

No ASD Table

Relevant External Links for TCEA2 Gene

GeneLoc Exon Structure for
TCEA2

Expression for TCEA2 Gene

Products:

  1. Primer
  2. Gene Expression Assay

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for TCEA2 Gene

mRNA expression in normal human tissues for TCEA2 Gene
mRNA expression by BioGPS for TCEA2 GenemRNA expression by GTEx for TCEA2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

  • Testis (Reproductive System)

Protein differential expression in normal tissues from HIPED for TCEA2 Gene

This gene is overexpressed in Plasma (43.8) and Ovary (19.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for TCEA2 Gene



Protein tissue co-expression partners for TCEA2 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for TCEA2

SOURCE GeneReport for Unigene cluster for TCEA2 Gene:

Hs.505004

mRNA Expression by UniProt/SwissProt for TCEA2 Gene:

Q15560-TCEA2_HUMAN
Tissue specificity: Testis and ovary specific.

Evidence on tissue expression from TISSUES for TCEA2 Gene

  • Nervous system(4.8)
  • Skin(4.5)
  • Liver(4.4)
  • Kidney(2)
genes like me logo Genes that share expression patterns with TCEA2: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for TCEA2 Gene

Orthologs for TCEA2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for TCEA2 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
 Mammalia TCEA2 30 31
  • 99.44 (n)
 OneToOne
Dog
(Canis familiaris)
 Mammalia TCEA2 30 31
  • 89.83 (n)
 OneToOne
Cow
(Bos Taurus)
 Mammalia TCEA2 30 31
  • 89.74 (n)
 OneToOne
Rat
(Rattus norvegicus)
 Mammalia Tcea2 30
  • 86.35 (n)
Mouse
(Mus musculus)
 Mammalia Tcea2 30 17 31
  • 85.46 (n)
 OneToOne
Platypus
(Ornithorhynchus anatinus)
 Mammalia TCEA2 31
  • 81 (a)
 OneToOne
Oppossum
(Monodelphis domestica)
 Mammalia TCEA2 31
  • 74 (a)
 OneToOne
Chicken
(Gallus gallus)
 Aves TCEA2 30 31
  • 76.06 (n)
 OneToOne
Lizard
(Anolis carolinensis)
 Reptilia -- 31
  • 84 (a)
 OneToMany
-- 31
  • 80 (a)
 OneToMany
African clawed frog
(Xenopus laevis)
 Amphibia LOC398066 30
Zebrafish
(Danio rerio)
 Actinopterygii tcea2 30 31
  • 69.13 (n)
 OneToOne
zgc56325 30
Fruit Fly
(Drosophila melanogaster)
 Insecta CG8117 31 32
  • 48 (a)
 ManyToMany
TfIIS 31 32
  • 47 (a)
 ManyToMany
Worm
(Caenorhabditis elegans)
 Secernentea T24H10.1 31 32
  • 42 (a)
 OneToMany
A. gosspyii yeast
(Eremothecium gossypii)
 Saccharomycetes AGOS_AGR011W 30
  • 46.1 (n)
Baker's yeast
(Saccharomyces cerevisiae)
 Saccharomycetes DST1 30 31
  • 43.76 (n)
 OneToMany
K. Lactis Yeast
(Kluyveromyces lactis)
 Saccharomycetes KLLA0F09361g 30
  • 41.53 (n)
Bread mold
(Neurospora crassa)
 Ascomycetes NCU02563 30
  • 47.22 (n)
Sea Squirt
(Ciona savignyi)
 Ascidiacea CSA.2769 31
  • 45 (a)
 OneToMany
Fission Yeast
(Schizosaccharomyces pombe)
 Schizosaccharomycetes tfs1 30
  • 42.26 (n)
Species where no ortholog for TCEA2 was found in the sources mined by GeneCards:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)

Evolution for TCEA2 Gene

ENSEMBL:
Gene Tree for TCEA2 (if available)
TreeFam:
Gene Tree for TCEA2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for TCEA2: view image

Paralogs for TCEA2 Gene

Paralogs for TCEA2 Gene

(7) SIMAP similar genes for TCEA2 Gene using alignment to 6 proteins:

  • TCEA2_HUMAN
  • Q5JRI7_HUMAN
  • Q5JRI8_HUMAN
  • Q5ZEZ5_HUMAN
  • Q6IB64_HUMAN
  • Q86VL0_HUMAN
genes like me logo Genes that share paralogs with TCEA2: view

Variants for TCEA2 Gene

Products:

  1. SNP Genotyping and Copy Number Assay

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for TCEA2 Gene

SNP ID Clinical significance and condition Chr 20 pos Variation AA Info Type
709170 Benign: not provided 64,048,912(+) C/T MISSENSE_VARIANT
730441 Likely Benign: not provided 64,048,322(+) G/A SYNONYMOUS_VARIANT
749628 Likely Benign: not provided 64,049,445(+) C/G SYNONYMOUS_VARIANT
754921 Likely Benign: not provided 64,048,172(+) G/A SYNONYMOUS_VARIANT
765354 Likely Benign: not provided 64,048,307(+) G/C SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for TCEA2 Gene

Structural Variations from Database of Genomic Variants (DGV) for TCEA2 Gene

Variant ID Type Subtype PubMed ID
dgv4345n100 CNV gain 25217958
dgv7701n54 CNV loss 21841781
esv1663265 CNV insertion 17803354
esv2758807 CNV gain+loss 17122850
nsv428381 CNV gain+loss 18775914
nsv470564 CNV gain 18288195
nsv509785 CNV insertion 20534489
nsv586703 CNV loss 21841781
nsv586732 CNV loss 21841781
nsv953310 CNV deletion 24416366

Variation tolerance for TCEA2 Gene

Residual Variation Intolerance Score: 27.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.62; 31.06% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for TCEA2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
TCEA2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TCEA2 Gene

Disorders for TCEA2 Gene

MalaCards: The human disease database

(3) MalaCards diseases for TCEA2 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
hypotrichosis-lymphedema-telangiectasia syndrome
  • hypotrichosis-lymphedema-telangiectasia-renal defect syndrome
uv-sensitive syndrome
  • uv sensitive syndrome
xeroderma pigmentosum, variant type
  • xpv
- elite association - COSMIC cancer census association via MalaCards
Search TCEA2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for TCEA2

Genetic Association Database
(GAD)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
genes like me logo Genes that share disorders with TCEA2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for TCEA2 Gene

Publications for TCEA2 Gene

  1. Genomic characterization of a testis-specific TFIIS (TCEA2) gene. (PMID: 9441762) Weaver ZA … Kane CM (Genomics 1997) 2 3 4 23
  2. Isolation and characterization of a cDNA encoding a new type of human transcription elongation factor S-II. (PMID: 8566795) Umehara T … Horikoshi M (Gene 1995) 2 3 4
  3. A negative elongation factor for human RNA polymerase II inhibits the anti-arrest transcript-cleavage factor TFIIS. (PMID: 16214896) Palangat M … Landick R (Proceedings of the National Academy of Sciences of the United States of America 2005) 3 23
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4

ExternalLinks

View latest publications for TCEA2 gene in Mastermind

Products for TCEA2 Gene

  • Signalway Proteins for TCEA2

Sources for TCEA2 Gene