Human Gene POLR1G (uc002pbr.1)
  Description: Homo sapiens CD3e molecule, epsilon associated protein (POLR1G), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr19:45,909,949-45,914,024 Size: 4,076 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr19:45,909,955-45,912,759 Size: 2,805 Coding Exon Count: 3 

Page IndexSequence and LinksPrimersGene AllelesMicroarray ExpressionRNA Structure
Protein StructureOther SpeciesmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:45,909,949-45,914,024)mRNA (may differ from genome)Protein (512 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsGeneNetworkLynx
MGIOMIMPubMedReactomeTreefamUniProtKB
WikipediaBioGrid 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


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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -411.301265-0.325 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
  Pfam Domains:
PF08208 - DNA-directed RNA polymerase I subunit RPA34.5

ModBase Predicted Comparative 3D Structure on O15446-2
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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 orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Descriptions from all associated GenBank mRNAs
  U86751 - Human nucleolar fibrillar center protein (ASE-1) mRNA, complete cds.
BC054044 - Homo sapiens CD3e molecule, epsilon associated protein, mRNA (cDNA clone IMAGE:6166782), partial cds.
BC046141 - Homo sapiens CD3e molecule, epsilon associated protein, mRNA (cDNA clone IMAGE:5581697), partial cds.
BC108889 - Homo sapiens CD3e molecule, epsilon associated protein, mRNA (cDNA clone MGC:118851 IMAGE:40001010), complete cds.
AK292183 - Homo sapiens cDNA FLJ75784 complete cds, highly similar to Homo sapiens CD3E antigen, epsilon polypeptide associated protein (CD3EAP), mRNA.
BC009705 - Homo sapiens CD3e molecule, epsilon associated protein, mRNA (cDNA clone IMAGE:3901859), partial cds.
BC028109 - Homo sapiens cDNA clone IMAGE:5249001, containing frame-shift errors.
BC065251 - Homo sapiens CD3e molecule, epsilon associated protein, mRNA (cDNA clone IMAGE:6140210).
JD283132 - Sequence 264156 from Patent EP1572962.
JD231453 - Sequence 212477 from Patent EP1572962.
AF017633 - Homo sapiens CD3e-associated protein (CAST) mRNA, complete cds.
BC038992 - Homo sapiens CD3e molecule, epsilon associated protein, mRNA (cDNA clone MGC:47680 IMAGE:6052122), complete cds.
EU446938 - Synthetic construct Homo sapiens clone IMAGE:100069957; IMAGE:100012147; FLH257135.01L CD3e molecule, epsilon associated protein (CD3EAP) gene, encodes complete protein.
JD370411 - Sequence 351435 from Patent EP1572962.
JD530525 - Sequence 511549 from Patent EP1572962.
JD437727 - Sequence 418751 from Patent EP1572962.
JD316317 - Sequence 297341 from Patent EP1572962.
JD466302 - Sequence 447326 from Patent EP1572962.
JD064539 - Sequence 45563 from Patent EP1572962.
JD264680 - Sequence 245704 from Patent EP1572962.
JD134466 - Sequence 115490 from Patent EP1572962.
JD131718 - Sequence 112742 from Patent EP1572962.
JD514069 - Sequence 495093 from Patent EP1572962.
JD460170 - Sequence 441194 from Patent EP1572962.
JD242428 - Sequence 223452 from Patent EP1572962.
JD051628 - Sequence 32652 from Patent EP1572962.
JD321976 - Sequence 303000 from Patent EP1572962.
JD220947 - Sequence 201971 from Patent EP1572962.
JD489452 - Sequence 470476 from Patent EP1572962.
JD070251 - Sequence 51275 from Patent EP1572962.
JD303873 - Sequence 284897 from Patent EP1572962.
JD101306 - Sequence 82330 from Patent EP1572962.
JD251845 - Sequence 232869 from Patent EP1572962.
JD311614 - Sequence 292638 from Patent EP1572962.
JD538713 - Sequence 519737 from Patent EP1572962.
JD040258 - Sequence 21282 from Patent EP1572962.
JD374378 - Sequence 355402 from Patent EP1572962.
JD113029 - Sequence 94053 from Patent EP1572962.
JD323454 - Sequence 304478 from Patent EP1572962.
JD347798 - Sequence 328822 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O15446 (Reactome details) participates in the following event(s):

R-HSA-73865 Assembly of RNA Polymerase I Holoenzyme (human)
R-HSA-73757 Binding of RRN3 to RNA Polymerase I
R-HSA-5250947 B-WICH complex binds rDNA promoter
R-HSA-73758 Recruitment of Active RNA Polymerase I to SL1:phos.UBF-1:rDNA Promoter
R-HSA-74994 Polymerase I Transcription Complex/Nascent Pre rRNA Complex pauses at the TTF-I:Sal Box
R-HSA-73769 Loss of Rrn3 from RNA Polymerase I promoter escape complex
R-HSA-74992 Dissociation of PTRF:Polymerase I/Nascent Pre rRNA Complex:TTF-I:Sal Box
R-HSA-5250930 B-WICH recruits histone acetyltransferases
R-HSA-74993 PTRF Binds the Polymerase I Transcription Complex/Nascent Pre rRNA Complex paused at the TTF-I:Sal Box
R-HSA-74986 Elongation of pre-rRNA transcript
R-HSA-427366 Transcription of intergenic spacer of the rRNA gene
R-HSA-5250938 B-WICH:histone acetyltransferase acetylates histone H3 at lysine-9
R-HSA-73762 RNA Polymerase I Transcription Initiation
R-HSA-5250924 B-WICH complex positively regulates rRNA expression
R-HSA-73854 RNA Polymerase I Promoter Clearance
R-HSA-73863 RNA Polymerase I Transcription Termination
R-HSA-73772 RNA Polymerase I Promoter Escape
R-HSA-5250913 Positive epigenetic regulation of rRNA expression
R-HSA-73864 RNA Polymerase I Transcription
R-HSA-73777 RNA Polymerase I Chain Elongation
R-HSA-427413 NoRC negatively regulates rRNA expression
R-HSA-212165 Epigenetic regulation of gene expression
R-HSA-74160 Gene expression (Transcription)
R-HSA-5250941 Negative epigenetic regulation of rRNA expression

-  Other Names for This Gene
  Alternate Gene Symbols: AF017633, ASE1, CAST, CD3EAP, NM_012099, NP_036231, O15446-2, PAF49
UCSC ID: uc002pbr.1
RefSeq Accession: NM_012099
Protein: O15446-2, splice isoform of O15446 CCDS: CCDS12661.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AF017633.1
exon count: 3CDS single in 3' UTR: no RNA size: 1841
ORF size: 1539CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3272.00frame shift in genome: no % Coverage: 99.35
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.