Human Gene EP400NL (uc001ujv.3)
  Description: Homo sapiens EP400 N-terminal like (EP400NL), non-coding RNA.
Transcript (Including UTRs)
   Position: hg19 chr12:132,588,542-132,593,444 Size: 4,903 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr12:132,588,566-132,593,299 Size: 4,734 Coding Exon Count: 2 

Page IndexSequence and LinksPrimersCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesmRNA DescriptionsOther Names
Model InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:132,588,542-132,593,444)mRNA (may differ from genome)Protein (488 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGeneCardsGeneNetworkH-INV
HGNCLynxMGIPubMedTreefamUniProtKB

-  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: 10.06 RPKM in Testis
Total median expression: 83.45 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
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -1.3024-0.054 Picture PostScript Text
3' UTR -32.17145-0.222 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:
PF15790 - E1A-binding protein p400, N-terminal

ModBase Predicted Comparative 3D Structure on Q6ZTU2-6
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 Details     
Gene Sorter     
      
      
      

-  Descriptions from all associated GenBank mRNAs
  AK126212 - Homo sapiens cDNA FLJ44224 fis, clone THYMU3006132.
AK289710 - Homo sapiens cDNA FLJ77964 complete cds.
AK097720 - Homo sapiens cDNA FLJ40401 fis, clone TESTI2037106.
BC015414 - Homo sapiens EP400 N-terminal like, mRNA (cDNA clone IMAGE:4394403), with apparent retained intron.
BC066974 - Homo sapiens EP400 N-terminal like, mRNA (cDNA clone IMAGE:4374107).
AK090610 - Homo sapiens cDNA FLJ33291 fis, clone BNGH41000057, highly similar to E1A-binding protein p400 (EC 3.6.1.-).
AX746533 - Sequence 58 from Patent EP1308459.
AK091234 - Homo sapiens cDNA FLJ33915 fis, clone CTONG2016658.
AX746866 - Sequence 391 from Patent EP1308459.
JD436164 - Sequence 417188 from Patent EP1572962.
KJ904222 - Synthetic construct Homo sapiens clone ccsbBroadEn_13616 EP400NL gene, encodes complete protein.
CU688232 - Synthetic construct Homo sapiens gateway clone IMAGE:100021167 5' read EP400NL mRNA.
AL117637 - Homo sapiens mRNA; cDNA DKFZp434I225 (from clone DKFZp434I225).

-  Other Names for This Gene
  Alternate Gene Symbols: AL117637, Q6ZTU2-6
UCSC ID: uc001ujv.3
RefSeq Accession: NR_003290
Protein: Q6ZTU2-6, splice isoform of Q6ZTU2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AL117637.1
exon count: 2CDS single in 3' UTR: no RNA size: 1451
ORF size: 1467CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2170.00frame shift in genome: no % Coverage: 97.73
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 217# 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.