Human Gene TCEAL5 (ENST00000372680.2_7) from GENCODE V47lift37
  Description: transcription elongation factor A like 5 (from RefSeq NM_001012979.3)
Gencode Transcript: ENST00000372680.2_7
Gencode Gene: ENSG00000204065.3_9
Transcript (Including UTRs)
   Position: hg19 chrX:102,528,619-102,531,678 Size: 3,060 Total Exon Count: 3 Strand: -
Coding Region
   Position: hg19 chrX:102,528,871-102,529,491 Size: 621 Coding Exon Count: 1 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:102,528,619-102,531,678)mRNA (may differ from genome)Protein (206 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIPubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TCAL5_HUMAN
DESCRIPTION: RecName: Full=Transcription elongation factor A protein-like 5; Short=TCEA-like protein 5; AltName: Full=Transcription elongation factor S-II protein-like 5;
FUNCTION: May be involved in transcriptional regulation.
INTERACTION: P43354:NR4A2; NbExp=2; IntAct=EBI-2681773, EBI-2681738;
SUBCELLULAR LOCATION: Nucleus (Probable).
SIMILARITY: Belongs to the TFS-II family. TFA subfamily.

-  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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 67.47 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 680.37 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -54.20173-0.313 Picture PostScript Text
3' UTR -59.70252-0.237 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
IPR021156 - TF_A-like/BEX-like
IPR010370 - TFA

Pfam Domains:
PF04538 - Brain expressed X-linked like family

ModBase Predicted Comparative 3D Structure on Q5H9L2
FrontTopSide
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.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0050699 WW domain binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  AF086094 - Homo sapiens full length insert cDNA clone YZ87H06.
JD178844 - Sequence 159868 from Patent EP1572962.
BC132922 - Homo sapiens transcription elongation factor A (SII)-like 5, mRNA (cDNA clone MGC:164553 IMAGE:40146944), complete cds.
BC132924 - Homo sapiens transcription elongation factor A (SII)-like 5, mRNA (cDNA clone MGC:164555 IMAGE:40146946), complete cds.
JD259487 - Sequence 240511 from Patent EP1572962.
KJ896080 - Synthetic construct Homo sapiens clone ccsbBroadEn_05474 TCEAL5 gene, encodes complete protein.
AB464731 - Synthetic construct DNA, clone: pF1KB8761, Homo sapiens TCEAL5 gene for transcription elongation factor A (SII)-like 5, without stop codon, in Flexi system.
JD510452 - Sequence 491476 from Patent EP1572962.
JD173031 - Sequence 154055 from Patent EP1572962.
JD504994 - Sequence 486018 from Patent EP1572962.
JD157431 - Sequence 138455 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A2RUJ4, ENST00000372680.1, NM_001012979, Q5H9L2, TCAL5_HUMAN, uc318kcu.1, uc318kcu.2
UCSC ID: ENST00000372680.2_7
RefSeq Accession: NM_001012979.3
Protein: Q5H9L2 (aka TCAL5_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.