Human Gene TCF20 (ENST00000677622.1_9) from GENCODE V47lift37

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Description: transcription factor 20, transcript variant 3 (from RefSeq NM_001378418.1)
Gencode Transcript: ENST00000677622.1_9
Gencode Gene: ENSG00000100207.21_18
Transcript (Including UTRs)
Position: hg19 chr22:42,556,019-42,666,659 Size: 110,641 Total Exon Count: 6 Strand: -
Coding Region
Position: hg19 chr22:42,564,659-42,611,311 Size: 46,653 Coding Exon Count: 4

Page Index	Sequence and Links	Primers	MalaCards	CTD	Gene Alleles
Microarray Expression	RNA Structure	Other Species	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 (chr22:42,556,019-42,666,659)			mRNA (may differ from genome)		Protein (1960 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	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

MalaCards Disease Associations


	MalaCards Gene Search: TCF20 Diseases sorted by gene-association score: vertebrobasilar insufficiency (11), breast sarcoma (11), leukoencephalopathy with vanishing white matter (6), autism spectrum disorder (1)

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D000082 Acetaminophen D000638 Amiodarone D002104 Cadmium D019256 Cadmium Chloride D002945 Cisplatin D005839 Gentamicins D013749 Tetrachlorodibenzodioxin C045950 propiconazole C025643 vinclozolin

Common Gene Haplotype Alleles


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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	-191.70	351	-0.546	Picture	PostScript	Text
3' UTR	-413.10	1390	-0.297	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.

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

Descriptions from all associated GenBank mRNAs


	BC156502 - Synthetic construct Homo sapiens clone IMAGE:100063133, MGC:190700 transcription factor 20 (AR1) (TCF20) mRNA, encodes complete protein. AB006630 - Homo sapiens mRNA for KIAA0292 gene, partial cds. LP895442 - Sequence 306 from Patent EP3253886. U19345 - Homo sapiens AR1 (TCF20) mRNA, partial cds. BC172542 - Synthetic construct Homo sapiens clone IMAGE:100069236, MGC:199247 transcription factor 20 (AR1) (TCF20) mRNA, encodes complete protein. KF851355 - Homo sapiens transcription factor 20 (TCF20) mRNA, complete cds. AB527391 - Synthetic construct DNA, clone: pF1KA0292, Homo sapiens TCF20 gene for transcription factor 20, without stop codon, in Flexi system. BC013180 - Homo sapiens transcription factor 20 (AR1), mRNA (cDNA clone IMAGE:4340825), with apparent retained intron. JD532747 - Sequence 513771 from Patent EP1572962. JD475452 - Sequence 456476 from Patent EP1572962. JD078621 - Sequence 59645 from Patent EP1572962. JD532855 - Sequence 513879 from Patent EP1572962. JD546166 - Sequence 527190 from Patent EP1572962. JD092671 - Sequence 73695 from Patent EP1572962. JD433595 - Sequence 414619 from Patent EP1572962. JD312339 - Sequence 293363 from Patent EP1572962. JD207883 - Sequence 188907 from Patent EP1572962. JD552442 - Sequence 533466 from Patent EP1572962. JD140237 - Sequence 121261 from Patent EP1572962. JD125019 - Sequence 106043 from Patent EP1572962. JD191219 - Sequence 172243 from Patent EP1572962. JD396758 - Sequence 377782 from Patent EP1572962. JD276878 - Sequence 257902 from Patent EP1572962. DQ570918 - Homo sapiens piRNA piR-31030, complete sequence.

Other Names for This Gene


	Alternate Gene Symbols: hCG_41553 , NM_001378418, TCF20 , uc330cwh.1, uc330cwh.2, W5ZR30, W5ZR30_HUMAN UCSC ID: ENST00000677622.1_9 RefSeq Accession: NM_001378418.1

Gene Model Information


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Methods, Credits, and Use Restrictions


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