Human Gene TCEA2 (ENST00000343484.10_4) from GENCODE V47lift37

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Description: transcription elongation factor A2, transcript variant 1 (from RefSeq NM_003195.6)
Gencode Transcript: ENST00000343484.10_4
Gencode Gene: ENSG00000171703.17_8
Transcript (Including UTRs)
Position: hg19 chr20:62,694,551-62,703,700 Size: 9,150 Total Exon Count: 10 Strand: +
Coding Region
Position: hg19 chr20:62,694,666-62,703,533 Size: 8,868 Coding Exon Count: 10

Page Index	Sequence and Links	Primers	CTD	Gene Alleles	RNA-Seq Expression
Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations	mRNA Descriptions
Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr20:62,694,551-62,703,700)			mRNA (may differ from genome)		Protein (299 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	OMIM	PubMed	UniProtKB	Wikipedia
BioGrid CRISPR DB

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D019327 Copper Sulfate C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene C014024 2,4,5,2',4',5'-hexachlorobiphenyl D015085 2,4,5-Trichlorophenoxyacetic Acid D000082 Acetaminophen D000452 Aldrin D000643 Ammonium Chloride D001564 Benzo(a)pyrene D002117 Calcitriol D002794 Choline more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 33.72 RPKM in Brain - Cerebellum Total median expression: 608.91 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-64.50	115	-0.561	Picture	PostScript	Text
3' UTR	-39.80	167	-0.238	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR016492 - TF_IIS-rel
IPR003617 - TFIIS/CRSP70_N_sub
IPR003618 - TFIIS_cen_dom
IPR017923 - TFIIS_N
IPR017890 - TFS2M
IPR006289 - TFSII
IPR001222 - Znf_TFIIS

Pfam Domains:
PF01096 - Transcription factor S-II (TFIIS)
PF07500 - Transcription factor S-II (TFIIS), central domain
PF08711 - TFIIS helical bundle-like domain

SCOP Domains:
47676 - Conserved domain common to transcription factors TFIIS, elongin A, CRSP70
46942 - Elongation factor TFIIS domain 2
57783 - Zinc beta-ribbon

ModBase Predicted Comparative 3D Structure on Q6IB64


Front	Top	Side

The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD	Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0003676 nucleic acid binding GO:0003746 translation elongation factor activity GO:0008270 zinc ion binding GO:0046872 metal ion binding Biological Process: GO:0006351 transcription, DNA-templated GO:0006355 regulation of transcription, DNA-templated GO:0006414 translational elongation GO:0045944 positive regulation of transcription from RNA polymerase II promoter Cellular Component: GO:0005634 nucleus

Descriptions from all associated GenBank mRNAs


	BC098585 - Homo sapiens transcription elongation factor A (SII), 2, mRNA (cDNA clone IMAGE:30344530), with apparent retained intron. AK027824 - Homo sapiens cDNA FLJ14918 fis, clone PLACE1007239, highly similar to Transcription elongation factor A protein 2. LF206071 - JP 2014500723-A/13574: Polycomb-Associated Non-Coding RNAs. BC050623 - Homo sapiens transcription elongation factor A (SII), 2, mRNA (cDNA clone MGC:60091 IMAGE:5171174), complete cds. BC014211 - Homo sapiens transcription elongation factor A (SII), 2, mRNA (cDNA clone IMAGE:4763969), with apparent retained intron. BC063636 - Homo sapiens cDNA clone IMAGE:4390719, partial cds. BC018896 - Homo sapiens transcription elongation factor A (SII), 2, mRNA (cDNA clone MGC:10374 IMAGE:3955723), complete cds. JD256901 - Sequence 237925 from Patent EP1572962. BC050624 - Homo sapiens transcription elongation factor A (SII), 2, mRNA (cDNA clone IMAGE:6174043), with apparent retained intron. BC056407 - Homo sapiens transcription elongation factor A (SII), 2, mRNA (cDNA clone IMAGE:4392792), with apparent retained intron. JD484763 - Sequence 465787 from Patent EP1572962. D50495 - Homo sapiens mRNA for transcription elongation factor S-II, hS-II-T1, complete cds. JD271745 - Sequence 252769 from Patent EP1572962. CU690746 - Synthetic construct Homo sapiens gateway clone IMAGE:100021296 5' read TCEA2 mRNA. KJ901781 - Synthetic construct Homo sapiens clone ccsbBroadEn_11175 TCEA2 gene, encodes complete protein. CR456940 - Homo sapiens full open reading frame cDNA clone RZPDo834A055D for gene TCEA2, transcription elongation factor A (SII), 2; complete cds, incl. stopcodon. AB590039 - Synthetic construct DNA, clone: pFN21AB8259, Homo sapiens TCEA2 gene for transcription elongation factor A (SII), 2, without stop codon, in Flexi system. EU446904 - Synthetic construct Homo sapiens clone IMAGE:100070154; IMAGE:100012113; FLH257437.01L transcription elongation factor A (SII), 2 (TCEA2) gene, encodes complete protein. BC031877 - Homo sapiens transcription elongation factor A (SII), 2, mRNA (cDNA clone IMAGE:4826767), with apparent retained intron. AK226140 - Homo sapiens mRNA for transcription elongation factor A protein 2 isoform a variant, clone: ph00240. AJ844626 - Homo sapiens partial TCEA2 pseudogene mRNA, 5' end. AJ844627 - Homo sapiens partial mRNA for transcription elongation factor A protein 2 (SII) (TCEA2 gene). JD191500 - Sequence 172524 from Patent EP1572962. JD098441 - Sequence 79465 from Patent EP1572962. JD322632 - Sequence 303656 from Patent EP1572962. MA441648 - JP 2018138019-A/13574: Polycomb-Associated Non-Coding RNAs.

Other Names for This Gene


	Alternate Gene Symbols: ENST00000343484.1, ENST00000343484.2, ENST00000343484.3, ENST00000343484.4, ENST00000343484.5, ENST00000343484.6, ENST00000343484.7, ENST00000343484.8, ENST00000343484.9, hCG_2021465 , NM_003195, Q6IB64, Q6IB64_HUMAN, TCEA2 , uc317wqu.1, uc317wqu.2 UCSC ID: ENST00000343484.10_4 RefSeq Accession: NM_003195.6 Protein: Q6IB64

Gene Model Information


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Methods, Credits, and Use Restrictions


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