Human Gene TBRG4 (uc011kcd.3)
  Description: Homo sapiens transforming growth factor beta regulator 4 (TBRG4), transcript variant 4, mRNA.
Transcript (Including UTRs)
   Position: hg19 chr7:45,139,699-45,151,346 Size: 11,648 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr7:45,139,924-45,151,268 Size: 11,345 Coding Exon Count: 11 

Page IndexSequence and LinksPrimersGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:45,139,699-45,151,346)mRNA (may differ from genome)Protein (642 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMGIOMIMPubMed
UniProtKBWikipediaBioGrid 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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): TBRG4
CDC HuGE Published Literature: TBRG4

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  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: 30.37 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 783.62 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 -29.3078-0.376 Picture PostScript Text
3' UTR -96.02225-0.427 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
IPR013579 - FAST_2
IPR010622 - FAST_Leu-rich
IPR013584 - RAP

Pfam Domains:
PF06743 - FAST kinase-like protein, subdomain 1
PF08368 - FAST kinase-like protein, subdomain 2
PF08373 - RAP domain

ModBase Predicted Comparative 3D Structure on B4DU42
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004672 protein kinase activity

Biological Process:
GO:0006468 protein phosphorylation

Cellular Component:
GO:0005739 mitochondrion


-  Descriptions from all associated GenBank mRNAs
  KJ892722 - Synthetic construct Homo sapiens clone ccsbBroadEn_02116 TBRG4 gene, encodes complete protein.
AB023165 - Homo sapiens KIAA0948 mRNA for KIAA0948 protein.
AF011792 - Homo sapiens cell cycle progression 2 protein (CPR2) mRNA, complete cds.
BC002732 - Homo sapiens transforming growth factor beta regulator 4, mRNA (cDNA clone IMAGE:3632005), partial cds.
BC017235 - Homo sapiens transforming growth factor beta regulator 4, mRNA (cDNA clone MGC:19723 IMAGE:3538504), complete cds.
BC014918 - Homo sapiens transforming growth factor beta regulator 4, mRNA (cDNA clone MGC:17875 IMAGE:3906670), complete cds.
AK222943 - Homo sapiens mRNA for cell cycle progression 2 protein isoform 2 variant, clone: HRC09892.
AL833840 - Homo sapiens mRNA; cDNA DKFZp727A151 (from clone DKFZp727A151).
AK298155 - Homo sapiens cDNA FLJ61734 complete cds, highly similar to Homo sapiens transforming growth factor beta regulator 4 (TBRG4), transcript variant 1, mRNA.
AK092132 - Homo sapiens cDNA FLJ34813 fis, clone NT2NE2007725, highly similar to Homo sapiens transforming growth factor beta regulator 4 (TBRG4), transcript variant 1, mRNA.
AX747370 - Sequence 895 from Patent EP1308459.
AK022575 - Homo sapiens cDNA FLJ12513 fis, clone NT2RM2001743, highly similar to Homo sapiens transforming growth factor beta regulator 4 (TBRG4), transcript variant 1, mRNA.
AK300489 - Homo sapiens cDNA FLJ56153 complete cds, highly similar to Homo sapiens transforming growth factor beta regulator 4 (TBRG4), transcript variant 1, mRNA.
AK001281 - Homo sapiens cDNA FLJ10419 fis, clone NT2RP1000163, highly similar to Homo sapiens transforming growth factor beta regulator 4 (TBRG4), transcript variant 3, mRNA.
JD527873 - Sequence 508897 from Patent EP1572962.
JD536846 - Sequence 517870 from Patent EP1572962.
JD071800 - Sequence 52824 from Patent EP1572962.
JD199387 - Sequence 180411 from Patent EP1572962.
AB384055 - Synthetic construct DNA, clone: pF1KSDA0948, Homo sapiens TBRG4 gene for transforming growth factor beta regulator 4, complete cds, without stop codon, in Flexi system.
DQ894166 - Synthetic construct Homo sapiens clone IMAGE:100008626; FLH168300.01L; RZPDo839F0191D transforming growth factor beta regulator 4 (TBRG4) gene, encodes complete protein.
JD530950 - Sequence 511974 from Patent EP1572962.
JD419870 - Sequence 400894 from Patent EP1572962.
CU677117 - Synthetic construct Homo sapiens gateway clone IMAGE:100019965 5' read TBRG4 mRNA.
JX629745 - Homo sapiens H/ACA-sno-lncRNA snoRNA, complete sequence.
JD470983 - Sequence 452007 from Patent EP1572962.
JD205482 - Sequence 186506 from Patent EP1572962.
JD400832 - Sequence 381856 from Patent EP1572962.
JD404972 - Sequence 385996 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: B4DU42, B4DU42_HUMAN, NM_001261834, NP_001248763, uc011kcd.2
UCSC ID: uc011kcd.3
RefSeq Accession: NM_001261834
Protein: B4DU42 CCDS: CCDS5501.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001261834.1
exon count: 11CDS single in 3' UTR: no RNA size: 2247
ORF size: 1929CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4030.00frame shift in genome: no % Coverage: 99.33
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.